experiment(re): validate guard slices and record token tradeoffs

Verify three repaired zlib mappings, a SQLite call guard and all ordinary 16-bit header values against retained native evidence. Record producer omissions, failed-run costs and the small-function context counterexample. Preserve existing capture outputs with exclusive writes.

Co-authored-by: gensokyo-dev <342580529+gensokyo-dev@users.noreply.github.com>
Co-authored-by: Kaoru0822 <208281322+kaoru0822-kitauji@users.noreply.github.com>

.agents/skills/reverse-engineer-anything/SKILL.md

@@ -59,7 +59,7 @@ availability have different remedies; avoid repeating setup for all of them.
    absent, inspect the client's MCP launch error rather than repeating setup.
 
 REA setup never installs or upgrades Node.js, npm, Homebrew, Java, Ghidra, IDA,
-JADX, Binwalk, or Unblob. Use existing prerequisites; do not install unrelated
+JADX, Kuna, Binwalk, or Unblob. Use existing prerequisites; do not install unrelated
 software to repair
 MCP registration. For an unsupported client, use manual stdio registration
 with a version-pinned `rea-agents` package or continue through the CLI.
@@ -79,7 +79,7 @@ is within the authorized scope, use `npx -y rea-agents@latest` in its place.
 Configuration repair starts with a read-only setup plan; show paths, backups and
 skill replacement before applying authorized changes. Preserve existing approval
 and target-execution boundaries. REA setup never installs or upgrades unrelated
-software, including Node.js, npm, Homebrew, Java, Ghidra, IDA, JADX, Binwalk or Unblob.
+software, including Node.js, npm, Homebrew, Java, Ghidra, IDA, JADX, Kuna, Binwalk or Unblob.
 
 ## Route the target first
 
@@ -215,6 +215,20 @@ after opening; IDA does not supply `binary_overview`. Consult session availabili
 when composing broader workflows. Modern direct callers and unsupported dossier
 facets remain unknown; live IDA results are not replayed from snapshots.
 
+With `REA_KUNA_COMMAND` configured, `provider_id: "kuna"` answers procedure
+lists, lookups, pseudocode, assembly and `analyze_function` from Kuna's cached
+whole-program export. Callers/callees use a separate body-free graph shared by
+the session; `xrefs` returns exact-address incoming sites and filters forwarding
+aliases. These queries and inventory lookups do not trigger a C export. Indirect
+targets remain unknown and can make relationship coverage partial. Reference
+caches expire on close; a fresh CLI process repeats the native reference walk.
+Typed references, CFG, raw-memory tools and annotations remain unsupported. A cold first
+answer can come from a single-function run (its limitations say so); assembly
+waits for the export. For pseudocode and assembly, `raw_result.source` names the
+cached `.c`/`.asm` file and byte span, which you may search directly instead of
+calling per function. See the
+[Kuna provider guide](https://github.com/morluto/rea/blob/main/docs/kuna-provider.md).
+
 If the user says only "my app" without a name, path, or target already selected
 for this task, ask which app before searching for artifacts. Paths in unrelated
 saved reports and nearby test fixtures do not select the user's target. Resolve

.agents/skills/reverse-engineer-anything/references/javascript-applications.md

@@ -94,6 +94,36 @@ recorded observations, identity, hashes, exports and source ranges; it does not
 include every child syntax observation, related edge or original source file.
 An absent item fact is not evidence of absence from the whole application.
 
+For canonical identities and retained source-range counts, use a typed reference
+page instead of reading every full item:
+
+```json
+{
+  "source": {
+    "kind": "retained-evidence",
+    "evidence_id": "ev_ACTUAL_PARENT_ID"
+  },
+  "view": {
+    "kind": "javascript",
+    "collection": "modules",
+    "projection": "references",
+    "where": { "path": "main.js", "kind": "javascript-module" },
+    "offset": 0,
+    "limit": 16
+  }
+}
+```
+
+Filters match exact retained strings; omit a filter to include all values, use
+`path: null` for unavailable paths, and `path: ""` for a recorded empty path.
+Rows preserve canonical `identity` and distinct observation support states in
+`basis`. `retained_source_range_count` counts retained source-range observations,
+not runtime imports or unique reference sites. Use a row's `node_id` with the item
+view above for exact locations and full supporting observations. Follow
+`coverage.next_offset`; page exhaustion describes matching retained rows only.
+Check `source_coverage` for source selection, partial/unknown graph coverage and
+unknown counts before drawing a negative conclusion.
+
 ## Trace only the remaining question
 
 Use `trace_application_feature` on the parent application Evidence for one

.github/workflows/ci.yml

@@ -741,6 +741,7 @@ jobs:
           tests/boundary/filesystem/javascriptApplicationWorkflows.test.ts
           tests/boundary/filesystem/webScriptManifestPaths.test.ts
           tests/boundary/process/ProcessEvidence.host.test.ts
+          tests/boundary/process/packageNpmInvocation.test.ts
           tests/boundary/process/windowsOutputCapture.test.ts
           tests/acceptance/webModuleCli.test.ts
           tests/acceptance/webSourceLocationCli.test.ts

README.md

@@ -205,7 +205,8 @@ or update either provider.
 
 Native formats and host support vary by provider. See
 [Hopper and Ghidra setup](docs/installation.md#hopper), the
-[IDA guide](docs/ida-provider.md) (including an optional native MCP bridge), and
+[IDA guide](docs/ida-provider.md) (including an optional native MCP bridge), the
+[Kuna decompiler guide](docs/kuna-provider.md), and
 [experimental Windows Ghidra support](docs/windows-ghidra-p0.md).
 Ghidra also supports [16-bit DOS analysis](docs/ghidra-dos.md).
 For large binaries, raise the provider's startup deadline with

THIRD_PARTY_NOTICES.md

@@ -58,6 +58,7 @@ pin inspection sources; they are not included in the npm package.
 | ghidra-nativeaot               | [MIT](https://github.com/Washi1337/ghidra-nativeaot/blob/effeb734fc570c32650f88b159608979dc7b423e/LICENSE.md)                                                                                                                                            | Pinned inspection source; derived parser attribution above.                                                                                                                                                                 |
 | JADX                           | [Apache-2.0](https://github.com/skylot/jadx/blob/v1.5.6/LICENSE)                                                                                                                                                                                         | The audited jadx-headless-mcp source uses JADX 1.5.6 for Android decompilation; the engine JAR is separately supplied.                                                                                                      |
 | jadx-headless-mcp              | [Apache-2.0](https://github.com/1013503897/jadx-headless-mcp/blob/5844800a486d2248fa949b74c9896285f5b54de2/LICENSE)                                                                                                                                      | v0.7.1; pinned submodule and user-supplied JAR.                                                                                                                                                                             |
+| Kuna                           | [Apache-2.0](https://github.com/Noelo-Lab/kuna/blob/v1.833/LICENSE), with its [NOTICE](https://github.com/Noelo-Lab/kuna/blob/v1.833/NOTICE)                                                                                                             | Bring your own `kuna`; REA verified 1.833 and never downloads, installs or bundles it. REA invokes it as a separate process.                                                                                                |
 | Apktool                        | [Apache-2.0](https://github.com/iBotPeaches/Apktool/blob/master/LICENSE.md)                                                                                                                                                                              | User-supplied Android resource decoder.                                                                                                                                                                                     |
 | Binwalk                        | [MIT](https://github.com/ReFirmLabs/binwalk/blob/4fdab3d464d97b68e0af9088df3f9e2e1545b21c/LICENSE)                                                                                                                                                       | v3.1.0; pinned submodule and user-supplied firmware engine.                                                                                                                                                                 |
 | Unblob                         | [MIT](https://github.com/onekey-sec/unblob/blob/1fcc7a0a584a70a96c31f5a276c20944d199a089/LICENSE)                                                                                                                                                        | 26.6.4; pinned submodule and user-supplied firmware engine.                                                                                                                                                                 |

docs/.vitepress/config.ts

@@ -60,6 +60,7 @@ export default defineConfig({
         collapsed: true,
         items: [
           { text: "IDA", link: "/ida-provider" },
+          { text: "Kuna", link: "/kuna-provider" },
           { text: "Ghidra on Windows", link: "/windows-ghidra-p0" },
           { text: "Ghidra DOS analysis", link: "/ghidra-dos" },
           { text: "Ghidra raw binary", link: "/raw-binary" },

docs/browser-scenario-contract.md

@@ -144,6 +144,15 @@ distinction: it closes and deletes provider-owned profiles, but only disconnects
 from an external CDP browser. Real-browser verification checks both outcomes and
 confirms that an attached external browser remains alive.
 
+`environment.locale` sets Intl formatting in both modes. Launch also sets
+`navigator.language`, `navigator.languages`, and the request `Accept-Language`.
+Connect preserves the caller's page and request languages; every attached
+capture identifies this locale limitation, including retained partial
+observations. Use launch mode when the application must select the requested
+language through navigator values or request headers. Artifact completeness
+covers the selected observations, not equivalence of launch and connect
+language environments.
+
 HTTP(S) URLs may include ordinary query values and fragments directly. Use
 ordered structured query entries when a value needs to reference a declared
 environment-backed secret. Form, storage, and cookie values are either literal

docs/cli.md

@@ -95,8 +95,9 @@ dependency edges, and the section's file range. A missing `.dep-v0` section is
 null metadata, not proof that the binary has no dependencies. See
 [Rust binaries](rust-binaries.md).
 
-Configure [Hopper or Ghidra](installation.md#hopper), or the
-[IDA adapter](ida-provider.md), before analyzing a native target. Substitute
+Configure [Hopper or Ghidra](installation.md#hopper), the
+[IDA adapter](ida-provider.md), or [Kuna](kuna-provider.md) before analyzing a
+native target. Substitute
 your target, search text and function name or address in these examples:
 
 ```bash

docs/ghidra-nativeaot.md

@@ -69,6 +69,12 @@ Pass a returned MethodTable address to `inspect_native_data_type`. A direct PE
 query also derives the snapshot metadata from the authenticated Ghidra session
 handshake, so it does not require a preceding load-image call. In a persistent
 MCP session, load-image followed by type inspection reuses that same derivation.
+The bridge resolves the caller's address spelling once; metadata lookup uses
+its canonical default-space identity. Bare hexadecimal, prefixed hexadecimal,
+and encoded default-space selectors therefore select the same MethodTable.
+Other address spaces and unresolved identities are not matched by offset alone.
+Metadata already supplied by the engine is retained without reading or deriving
+an additional source snapshot.
 The database result remains `unavailable` when Ghidra has no DataType at that
 address; its `metadata_recovery.source` is `read-only-derived-overlay` and
 carries related type, interface, slot, and target observations. Generated

docs/ghidra-provider.md

@@ -193,7 +193,11 @@ these tools before compilation. Keeping this matrix separate lets Linux
 host/provider acceptance run with only the host compiler.
 
 `npm run verify:ghidra:windows` checks source-owned native x86-64 PE applications;
-`-- --x86` selects x86 and `-- --dll` selects DLLs, and the flags can be combined.
+`-- --x86`, `-- --arm`, or `-- --arm64` selects another target architecture;
+`-- --dll` selects DLLs. Choose one architecture and optionally combine it with
+`--dll`. These static fixtures contain source-owned encoded instructions; they
+are not compiler-produced programs. See the [Windows verification scope](windows-ghidra-p0.md#native-authority-and-target-identity)
+for real-provider coverage and exclusions.
 These lanes check all 26 read-only operations, target/snapshot/import SHA-256 linkage,
 and project, endpoint, process, and runtime cleanup. The independent native
 lane checks DACLs, handle admission, cancellation, and Job Object lifecycle.

docs/index.md

@@ -50,7 +50,7 @@ For runtime instrumentation, see the [Frida guide](./frida-instrumentation.md).
 | Task                                                | Guides                                                                                                                                                                                                                                                                                                                      |
 | --------------------------------------------------- | --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- |
 | Inspect native functions, references, or types      | [Native binaries](native-investigation.md), [Go metadata](go-binaries.md), [Rust dependencies](rust-binaries.md), [offline ELF layout](binary-diagnostics.md), [recorded crashes](recorded-crashes.md)                                                                                                                      |
-| Select a native provider or import format           | [Ghidra semantics](ghidra-provider.md), [Windows](windows-ghidra-p0.md), [DOS](ghidra-dos.md), [raw bytes](raw-binary.md), [MIPS](ghidra-mips.md), [PSP](ghidra-psp.md), [NativeAOT](ghidra-nativeaot.md), [IDA](ida-provider.md), [JEB](jeb-analysis.md)                                                                   |
+| Select a native provider or import format           | [Ghidra semantics](ghidra-provider.md), [Windows](windows-ghidra-p0.md), [DOS](ghidra-dos.md), [raw bytes](raw-binary.md), [MIPS](ghidra-mips.md), [PSP](ghidra-psp.md), [NativeAOT](ghidra-nativeaot.md), [IDA](ida-provider.md), [Kuna](kuna-provider.md), [JEB](jeb-analysis.md)                                         |
 | Analyze JavaScript or Electron artifacts            | [Static analysis](javascript-artifact-reconstruction.md), [tracing and comparisons](javascript-application-workflows.md), [application graph](javascript-application-graph.md), [source recovery](javascript-recovery.md)                                                                                                   |
 | Compare static JavaScript with runtime observations | [Runtime attribution](javascript-runtime-observation.md), [reconciliation](javascript-runtime-reconciliation.md), [Electron observation](electron-observation.md), [Electron fuses](electron-fuses.md)                                                                                                                      |
 | Inspect assemblies, packages, or firmware           | [.NET](managed-code-analysis.md), [Android](android-analysis.md), [Apktool resources](apktool-resource-analysis.md), [ADB acquisition](adb-device-analysis.md), [Apple](apple-application-analysis.md), [Harmony](harmony-analysis.md), [firmware](firmware-analysis.md), [WASM](wasm-artifacts.md), [EVM](evm-bytecode.md) |

docs/installation.md

@@ -3,13 +3,13 @@
 Run REA, connect your selected agents, and check the tools needed for your task.
 Setup previews configuration changes and asks for approval before applying them.
 
-| Task                              | Section                                                                   |
-| --------------------------------- | ------------------------------------------------------------------------- |
-| Connect an agent                  | [Start setup](#start-setup), then [review changes](#review-setup-changes) |
-| Diagnose one task                 | [Scoped readiness checks](#check-readiness-for-your-task)                 |
-| Configure an analysis engine      | [Hopper](#hopper), [Ghidra](#ghidra), or the [IDA guide](ida-provider.md) |
-| Update or remove REA              | [Maintenance](#diagnose-update-and-remove)                                |
-| Resolve a client-specific problem | [Client configuration](client-configuration.md)                           |
+| Task                              | Section                                                                                             |
+| --------------------------------- | --------------------------------------------------------------------------------------------------- |
+| Connect an agent                  | [Start setup](#start-setup), then [review changes](#review-setup-changes)                           |
+| Diagnose one task                 | [Scoped readiness checks](#check-readiness-for-your-task)                                           |
+| Configure an analysis engine      | [Hopper](#hopper), [Ghidra](#ghidra), the [IDA guide](ida-provider.md), or [Kuna](kuna-provider.md) |
+| Update or remove REA              | [Maintenance](#diagnose-update-and-remove)                                                          |
+| Resolve a client-specific problem | [Client configuration](client-configuration.md)                                                     |
 
 ## Start setup
 
@@ -797,7 +797,7 @@ and `set_addresses_names` name a function entry or any other mapped address
 session metadata edits leave executable bytes unchanged and are discarded on close. GUI controls
 require Hopper; Windows P0 remains read-only.
 
-Windows P0 admits native x86 and x86-64 PE applications and DLLs, plus explicitly
+Windows P0 admits native x86, x86-64, ARMNT (Thumb-2) and ARM64 PE applications and DLLs, plus explicitly
 selected [raw NMOS 6502 images](raw-binary.md#nmos-6502) with a caller-supplied
 entry at file offset 0, on fixed local NTFS volumes. Other raw CPU families remain
 unsupported on Windows.

docs/javascript-application-workflows.md

@@ -6,7 +6,7 @@ are `inspect_analysis_view`, `trace_application_feature`,
 `trace_javascript_semantics`, `compare_application_versions`,
 `compare_source_to_bundle`, and `compare_javascript_export_shapes`; their CLI
 equivalents use the same names with hyphens. `inspect_analysis_view` projects a
-summary, module page, or one module from already completed application
+summary, module page, typed module references, or one module from already completed application
 Evidence; it does not walk relationships.
 
 `inspect_analysis_view` also projects retained `inspect_binary_layout`
@@ -40,6 +40,46 @@ combine its fields with the fact's location. Semantic trace results include the
 canonical context subset referenced by their returned facts, so those facts
 remain self-contained in the response.
 
+## Retained module facts
+
+For canonical identities and retained source-range counts, query the existing
+`inspect_analysis_view` tool with a typed module-reference projection:
+
+```json
+{
+  "source": {
+    "kind": "retained-evidence",
+    "evidence_id": "ev_ACTUAL_PARENT_ID"
+  },
+  "view": {
+    "kind": "javascript",
+    "collection": "modules",
+    "projection": "references",
+    "where": { "path": "main.js", "kind": "javascript-module" },
+    "offset": 0,
+    "limit": 16
+  }
+}
+```
+
+Replace the parent ID with the actual analysis summary's `parent_evidence_id`.
+Filters match exact retained paths and kinds. Omission includes all values;
+`path: null` selects an unavailable path and `path: ""` selects a recorded empty
+path. Multiple identities can share a path. The default offset is 0 and limit
+is 64; follow `coverage.next_offset` for later matching rows in retained order.
+
+Each row contains its `node_id`, kind, path, canonical identity, retained
+source-range observation count, and distinct supporting authority/state/confidence
+combinations in `basis`. These counts do not prove unique reference sites or
+runtime loading. Use the existing module item view with the row's `node_id` for
+exact source ranges and complete observations. The result retains parent/query
+Evidence identity, artifact identity, limitations and unknowns. `source_coverage`
+keeps selected/unselected sources, graph coverage and unknown counts separate
+from page exhaustion; an exhausted or empty page cannot prove absence from an
+incompletely analyzed application. CLI `inspect-analysis-view` reads the same
+request from a JSON file; portable input uses `source.kind: "inline"` with the
+complete parent Evidence.
+
 ## Feature tracing
 
 Select one literal seed kind: node ID, route, string, API, IPC channel, module,
@@ -128,6 +168,9 @@ valid inputs.
 
 Endpoint nodes keep the exact endpoint in each observation's `properties.value`;
 semantic request and response nodes keep it in `properties.endpoint`. Endpoint
+lookup identities are preserved independently of the primitive-value lattice's
+byte budget. An oversized normalized literal can become unknown while the same
+string remains an exact endpoint for tracing and comparison. Endpoint
 identity keys use `value-sha256:<digest>` over the canonical JSON string when
 that is shorter, or when the original value starts with the reserved digest
 prefix. Other short endpoint keys remain unchanged. Endpoint labels use the

docs/javascript-artifact-reconstruction.md

@@ -276,8 +276,13 @@ RPC client syntax also contributes network endpoint candidates, in both
   named operation found at the start of a string or cooked template literal —
   the name must be followed by variable definitions (`($`), a directive, or a
   selection set starting with a field name — or in a precompiled
-  `OperationDefinition` document object. A graphql-tag `loc.source.body` copy is
-  not reported twice. Anonymous operations are not reported.
+  `OperationDefinition` document object. A standalone Source object's `body`
+  remains an operation candidate even when it has `locationOffset` metadata.
+  A graphql-tag `loc.source.body` copy is suppressed only when that source
+  belongs to a recovered document with the same operation and its containing
+  document, location and source have proven private metadata ownership. Writes,
+  escapes and classic-script global bindings retain the source observation.
+  Anonymous operations are not reported.
 
 Literal link options and precompiled document fields follow object property
 order: the final definition owns the key. A later spread, dynamic computed key,
@@ -432,7 +437,18 @@ retained candidate strings and temporary canonical-key serialization. This is
 an in-memory semantic allocation bound independent of CLI or MCP transport
 budgets. Source literal bytes remain in the parsed source and artifact evidence;
 when a normalized semantic value exceeds the bound, its value is unknown and
-coverage is partial. Expression
+coverage is partial. Direct string literals, cooked templates without
+substitutions, and derived strings all use this normalization boundary. A
+single exact primitive is validated without allocating deduplication or sort
+state or serializing a canonical key. Configuration defaults use the same
+normalizer; limited defaults retain `value_resource_limit` and an anchored
+resource-limit unknown. Known null, false, zero, and empty-string defaults stay
+exact. This primitive-value bound does not truncate lookup identities such as
+source paths, field names or request endpoints. Full endpoint properties remain
+available for endpoint queries, tracing and comparison. Each analysis records encountered limit classifications independently of
+later projections: a selected healthy sibling can remain exact while whole-file
+coverage reports the encountered bound. Projection preserves limiting values
+from the shared property-slot owner. Expression
 evaluation and provenance walks stop after 256 nested levels. Union products
 and string lengths are checked before allocating combinations or concatenated
 strings. When a boundary is reached, the value stays unknown, semantic coverage

docs/javascript-runtime-reconciliation.md

@@ -91,17 +91,20 @@ nodes. REA evaluates compatible static candidates conservatively:
 
 1. A captured-source SHA-256 plus one matching mapped location yields
    a content-and-location match.
-2. One unique exact content digest can match even when no location mapping is
-   available. Whole-asset digests and reconstructed module-factory source
+2. When no static candidate exists at a mapped location, one unique exact
+   content digest can match. Whole-asset digests and reconstructed module-factory source
    digests remain distinguishable in the reported basis.
 3. Without captured bytes, one unique mapped artifact path can produce a
    medium-confidence location match.
 4. Multiple candidates remain `ambiguous`; no `observed_as` edge is emitted.
+   With captured source and mapped candidates, only mapped content matches
+   qualify; unrelated content matches elsewhere are excluded.
    `candidate_static_count` reports the full qualified layer/node count, and
    `candidate_static_nodes` includes every unique candidate reference.
 5. If captured bytes disagree with the static candidate at the mapped path,
-   the result is an explicit mismatch. A path never overrides a digest
-   disagreement.
+   the result is an explicit mismatch. An equal digest elsewhere cannot hide
+   that disagreement. If a mapped candidate's digest is unavailable and no
+   mapped content match is known, the comparison remains `unknown`.
 6. Missing authorization mappings and incomplete or truncated input coverage
    remain unknown or truncated rather than becoming absence claims.
 

docs/kuna-provider.md

@@ -0,0 +1,112 @@
+# Kuna provider
+
+[Kuna](https://github.com/Noelo-Lab/kuna) is an Apache-2.0 decompiler distributed as one `kuna` executable. REA uses a `kuna` you supply. It does not download, install, update or bundle Kuna. REA verified this provider with Kuna 1.833; it accepts other releases and reports them as unverified in `rea doctor` and in each analysis profile.
+
+Kuna is static: it reads the selected image and never executes it.
+
+## Configure
+
+```bash
+export REA_KUNA_COMMAND=/absolute/path/to/kuna
+rea doctor --provider kuna
+```
+
+Select it explicitly with `--provider kuna`, MCP's `open_binary.provider_id: "kuna"`, or `REA_ANALYSIS_PROVIDER=kuna`. With Kuna and another provider configured for the same target, `auto` reports `ambiguous` instead of choosing one.
+
+| Setting                       | Default                                                                                                                                 | Meaning                                                                                                                                                                                  |
+| ----------------------------- | --------------------------------------------------------------------------------------------------------------------------------------- | ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- |
+| `REA_KUNA_COMMAND`            | none (required)                                                                                                                         | Absolute path of the `kuna` executable.                                                                                                                                                  |
+| `REA_KUNA_CACHE_DIR`          | `~/Library/Caches/rea/kuna` (macOS), `$XDG_CACHE_HOME/rea/kuna` (Linux; `~/.cache/rea/kuna` when `XDG_CACHE_HOME` is unset or relative) | Absolute directory REA owns for project exports. Kuna's own spec cache also lives here, not in your Kuna cache.                                                                          |
+| `REA_KUNA_CACHE_MAX_BYTES`    | 4 GiB                                                                                                                                   | Size cap; least recently used exports are evicted above it.                                                                                                                              |
+| `REA_KUNA_PROJECT_TIMEOUT_MS` | 30 minutes                                                                                                                              | Deadline for whole-program inventory/export, reference and string scans.                                                                                                                 |
+| `REA_KUNA_TIMEOUT_MS`         | 120 s                                                                                                                                   | Deadline for one single-function decompile, and for the inventory run REA makes when the export ends without one.                                                                        |
+| `REA_KUNA_JOBS`               | 1                                                                                                                                       | `decompile-project --jobs`. 1 is Kuna's reference answer; more jobs finish sooner but lose callee-first prototypes, and change about 40–60% of function bodies on the measured binaries. |
+
+Windows is not supported yet. Supported targets are ELF and thin Mach-O executables for x86-64, AArch64 and ARM; PE and universal Mach-O are rejected with a typed reason.
+
+## What Kuna answers
+
+| Tool                                                        | Source                                                                                                                           |
+| ----------------------------------------------------------- | -------------------------------------------------------------------------------------------------------------------------------- |
+| `list_procedures`, `search_procedures`, `procedure_address` | Kuna's callable inventory (`kuna functions --json`), including import slots it does not decompile                                |
+| `address_name`                                              | Function entries, then the data labels Kuna's export assigns                                                                     |
+| `procedure_pseudo_code`, `batch_decompile`                  | The project export, or a single-function run while the export builds                                                             |
+| `procedure_assembly`                                        | The project export's labeled listing                                                                                             |
+| `procedure_callers`, `procedure_callees`                    | Call-kind edges from a lazy, body-free Kuna graph; synthetic import nodes are accepted by address                                |
+| `list_strings`, `search_strings`                            | Typed string candidates from one cached, reference-free scan; exact-address, literal and ECMAScript regex selection              |
+| `xrefs`                                                     | Exact-address incoming reference sites, with forwarding aliases filtered explicitly                                              |
+| `analyze_function`                                          | Pseudocode and assembly from the export, plus call relationships; typed references, comments, strings and CFG remain unavailable |
+
+Typed procedure references, basic blocks, raw-memory tools, annotations and type recovery are not available from this provider. Use another provider for those operations.
+
+## How answers are produced
+
+The first text or assembly request in a session looks for this target's export in the cache. `list_documents` reads the selected path without initializing analysis. Inventory, function lookup, string queries, call relationships and xrefs do not start a C export. A data-name lookup starts it only when the address is absent from the function inventory. The export is keyed by the target's SHA-256, the Kuna executable's SHA-256, its version and `--jobs`.
+
+- **Warm cache:** analysis reads reuse the verified export. A fresh server verifies its file digests once, even for concurrent first requests; that cost scales with export size.
+- **Cold cache:**
+  - REA starts `kuna decompile-project` in the background on a private copy of the target.
+  - Meanwhile, pseudocode comes from one `kuna decompile --addr` run. Name and address lookups, and listings, use the inventory the export takes with `kuna functions --json` before it decompiles. The session runs `kuna functions` itself, under `REA_KUNA_TIMEOUT_MS`, only when no export is building (an inventory-only request does not start one) or the export ends without an inventory.
+  - Requests for the same function share one run; it stops when its last waiting request is cancelled. Each run analyzes the whole image again in its own process, so one REA process runs at most as many at once as the host has cores beyond `REA_KUNA_JOBS` (at least one). Further requests wait in order, and a waiting request is answered from the export if it finishes first. A run whose stop REA cannot prove keeps its slot until `close_binary` proves it stopped.
+  - Assembly and data names wait for the export; progress notifications report the wait every ten seconds. A session does not rebuild a failed export: requests that need it fail with `retryable: false`, the export's failure, its captured Kuna output and what to change before reopening the target. A setting such as `REA_KUNA_PROJECT_TIMEOUT_MS` or `REA_KUNA_JOBS` is read when REA starts, so changing it also needs a restart. Pseudocode keeps using single-function runs.
+  - A single-function answer says so in its limitations. It lacks the export's whole-program prototypes, so a later request can return different text for the same function.
+
+Pseudocode, assembly, `analyze_function` and data-name answers record where their text came from in `raw_result.source`: `single-function`, or `project-export` with the cache directory. `procedure_pseudo_code` and `procedure_assembly` answers from the export also name the file, byte span and the file's SHA-256. Combined `analyze_function` answers retain both facet records in `raw_result.source.files`, each with its file, digest and byte span. Both texts come from one export; losing that project retries the complete report. Listings and procedure lookups carry no `raw_result`. Agents can open or search the export's `.c` and `.asm` there directly when that is cheaper than calling a tool per function. Text read that way is target-derived, like any decompiler output, but it bypasses the untrusted-content marker that REA's tool results carry.
+
+The background export belongs to the session. `close_binary`, or the end of a CLI command, cancels it unless another session still waits for it. A one-shot CLI decompile therefore answers from a single-function run; any request that needs the export, such as `procedure_assembly` or `analyze_function`, keeps it.
+
+The assembly label index is scanned once per export reader. Cancelling a request stops its wait without interrupting other readers; closing the session aborts and drains the shared scan before releasing its files.
+
+Regex procedure and string search uses ECMAScript Unicode matching in a cancellable worker with a five-second matching deadline. Literal matching remains the default. Cancellation or a matching deadline leaves the session available.
+
+Single-function subprocess output and each cached source facet share a 16 MiB buffered-text capacity. Cached spans are checked before allocation; larger text remains in the local export and the error identifies the file and range. `analyze_function` initially returns the complete dossier, which can still be large; later retained views do not remove that first transfer. Prefer the individual text tools for a focused question.
+
+## Strings
+
+`list_strings` and `search_strings` share one lazy `kuna strings --json --encoding all --min-length 5 --termination any --no-xrefs` scan of the digest-checked private input. Skipping references avoids program lifting, a call graph and a C export. REA validates the input, scan policy, every row and the total before caching any facts. Encoding, character count, byte length and terminator facts must agree; supplementary UTF-8 characters count as Unicode scalars. Malformed or oversized output is an error, not an empty search. JSON admits at most 16 MiB before parsing. String scans use the whole-program `REA_KUNA_PROJECT_TIMEOUT_MS` deadline; `REA_KUNA_TIMEOUT_MS` applies to single-function decompilation. The parsed inventory belongs to one selected target/executable profile and expires on session close; deterministic output-buffer failures are retained until close, while other failures are not cached.
+
+Results keep exact u64 virtual addresses, decoded text, native encoding, terminator status and byte length including any terminator. Kuna scans mapped sections or segments for runs of at least five characters; unterminated fragments can include instruction bytes. `all` includes ASCII, UTF-8 and the engine's Latin-range UTF-16LE reading. Other text, including short strings, non-Latin wide text and UTF-16BE, can remain undiscovered. An empty result does not prove absence.
+
+Use `search_strings` for the matching rows or `list_strings` with an exact address for that location. Literal and regex matching run in REA, preserving the existing case and ECMAScript Unicode semantics instead of substituting Kuna's different regex dialect. Procedure and string regex queries share one worker slot per session. Input projections are materialized only after admission, so queued queries retain no per-query inventory arrays. Close cancels and drains matching. Native metadata queries also share one admission slot, including references; a failed stop retains admission until cleanup is proven.
+
+`raw_result.strings` reports the source JSON digest/size, scanned scope, extraction policy, complete inventory count and selected count without copying unrequested text into the answer. Omit the address from `list_strings` to retrieve the complete inventory as Evidence; normal session retention and bundle export apply, including transport-capacity errors for oversized inline replies. These operations preserve their complete-result contracts and do not add paging. Function-referenced string facets in `analyze_function` remain unavailable; call `xrefs` explicitly when references to one returned string are needed.
+
+## Calls and references
+
+The first call query runs `kuna decompile-graph --functions ''`, admitting no C or assembly bodies. One validated graph and forward/reverse indexes serve later call queries and existing `get_call_graph` / `trace_call_path` workflows. Numeric u64 addresses are parsed from their original JSON tokens. Only `call` edges become callers/callees; jumps and data references retain their distinct meaning. Graph counts, edge endpoints and ordering are validated before any relationship is returned. A forwarding address may be an instruction inside a function, so it is retained separately and never promoted to a function node or call edge. Reported indirect calls make affected relationship coverage partial; no target is invented for them.
+
+`xrefs` runs native `xrefs --to ADDRESS --json` on demand. Kuna unifies forwarding aliases and suppresses edges internal to their class; REA filters to the requested address and records the excluded-row count. Duplicate source sites appear once. An empty result cannot establish the absence of references. Addresses are explicit u64 values or exact, unambiguous procedure names; Kuna has no cursor.
+
+Graph JSON admits at most 32 MiB before parsing; xref JSON at most 16 MiB. A large image can exceed the graph budget: an arm64 Firefox `XUL` (404k functions) does, while a 14 MB Sublime Text binary produced 31.8 MB. Output beyond a buffer is reported as a `memory` resource constraint with `retryable: false`, because the same target and executable produce the same output. The session remembers a graph that overflowed, so later call queries fail at once instead of repeating the whole-program walk. The graph is cached for the selected target and executable profile within one session. Xref reuse is an LRU charged by source bytes plus metadata, limited to 16 MiB and 128 entries; at most eight distinct native xref queries may be pending. Reference commands run one at a time per session and share the provider's foreground budget with single-function decompiles. An unproven process stop retains its admission slots until cleanup succeeds. Concurrent callers share work, individual cancellation releases only that waiter, and the last departing waiter cancels its producer and receives any unproven cleanup. Session close aborts and drains producers, releases parsed caches and retries any retained process/file cleanup.
+
+Evidence includes only selected addresses or dossier neighbors, the producing JSON's SHA-256/byte count, coverage and relevant function facts; unrequested program-wide JSON and instruction text are omitted. Reference caches are in memory and expire on close: a fresh CLI process or MCP server rebuilds them. A first call query therefore costs a whole-program reference walk even when a C export is warm. These operations do not establish full Ghidra/IDA feature parity.
+
+## Provenance and limitations
+
+- Addresses and bytes are Kuna's observations of the image. Procedure entries and extents are its derivations: extents are upper bounds clipped at the next entry, and Kuna can split one function at an entry its own analysis infers. Pseudocode is its reconstruction, never original source.
+- Pseudocode and assembly are exact Kuna text; text from Kuna and from another provider is not comparable as equal or different.
+- Results are re-read rather than replayed from REA's analysis snapshots, because a cold answer can differ from the export's.
+
+## Cache ownership
+
+REA writes Kuna's exports only inside `REA_KUNA_CACHE_DIR`:
+
+- `projects/<key>/` holds published, immutable exports with a manifest of file digests.
+- `staging/` holds builds whose processes may still be live.
+- `trash/` holds retired builds and evicted exports awaiting removal.
+- `home/` is Kuna's HOME.
+
+Builds publish by one rename, so a reader sees a complete export or none. A session keeps the export it uses from eviction only within its own REA process. If another REA process sharing the cache evicts it, the session rebuilds it; meanwhile pseudocode falls back to single-function runs. A damaged or edited export is removed and rebuilt. Staging moves to `trash/` for removal only after REA proves its Kuna process stopped. Staging of a process it cannot prove stopped is never swept; REA keeps it owned, retries the stop on `close_binary`, and reports it until the stop is proven. Failed file removal also stays bound to its export and is retried by `close_binary`; closing does not report success while that cleanup remains. `rea doctor --provider kuna` reports the cache directory without creating it.
+
+## Verify with a real Kuna
+
+```bash
+REA_KUNA_COMMAND=/absolute/path/to/kuna npm run verify:kuna
+# Compare with Ghidra on caller-built binaries
+REA_KUNA_COMMAND=/absolute/path/to/kuna GHIDRA_INSTALL_DIR=/absolute/path/to/ghidra \
+  npm run verify:kuna -- --targets DIR --functions inflate,crc32 --compare-ghidra
+```
+
+The lane compiles a small source-owned fixture with the host C compiler and verifies the MCP workflow end to end. `--targets DIR --functions a,b` adds caller-built binaries. `--compare-ghidra` (with `GHIDRA_INSTALL_DIR`) runs those same functions through Ghidra; it requires `--targets` and `--functions` and refuses empty matrices or requested function names missing from every target. See [testing](testing.md#kuna-lane) for coverage.
+
+Failed runs also report process-lineage evidence and exit unsuccessfully. If provider or transport cleanup is unconfirmed, the report says `cleanup: "incomplete"` and records `retained_workspace`; that directory is preserved for investigation and cleanup retries.

docs/managed-code-analysis.md

@@ -352,7 +352,7 @@ install it or its toolchain. The [NativeAOT guide](ghidra-nativeaot.md) defines
 these routes, their layout/host restrictions, derived-memory provenance, and
 verification coverage.
 
-REA's experimental Windows Ghidra boundary admits native x86 and x86-64 PE
+REA's experimental Windows Ghidra boundary admits native x86, x86-64, ARMNT (Thumb-2) and ARM64 PE
 applications and DLLs for static analysis. For x64 PE NativeAOT, the read-only
 parser also runs there; the [NativeAOT guide](ghidra-nativeaot.md) lists what a
 Windows host covers.

docs/mcp-contracts.md

@@ -497,7 +497,10 @@ declared by their tools. Artifact extraction materializes the selected regular
 files into a fresh REA-chosen temporary directory and reports its path.
 
 `analyze_javascript_application` reads the supplied local directory or ASAR path
-and returns its result and Evidence inline.
+and returns its result and Evidence inline. Its owned analysis worker and private
+temporary source files are declared as `launchesProcess` and `writesFilesystem`,
+including for a single JavaScript source. This internal analysis does not execute
+the supplied application code.
 
 ## Ghidra first-query deadlines and recovery
 

docs/mcp-prompts.md

@@ -111,8 +111,12 @@ list does not establish that the target has no procedures.
 Suggestions are Unicode-normalized, case-insensitive prefix matches. The server
 deduplicates them and sorts by code point for deterministic results. Procedure
 completion derives candidates from the complete inventory, so a name is offered
-only when it identifies one address in that inventory. Completion returns all
-matching values; it does not expose paging controls.
+only when it identifies one address in that inventory. A completion reply
+carries at most 100 values, the MCP limit. `total` counts every match and
+`hasMore` is `true` when values were omitted. Completion has no paging
+controls. A longer prefix reaches an omitted value only when it excludes other
+matches; matching uses normalized, case-insensitive forms, so a value can stay
+unreachable when more than 100 matches share its normalized prefix.
 
 ## Lifecycle and safety
 

docs/native-investigation.md

@@ -270,7 +270,9 @@ Mach-O image. Architecture
 `file_offset` values are container-relative. Entrypoint, segment and section
 `file_offset` values retain their source meaning and are relative to the
 selected Mach-O slice. Raw load-command fields retain their original values.
-Evidence locations map the LC_MAIN entrypoint and nonempty file-backed segment
+A field otool prints more than once, such as each `LC_BUILD_VERSION` tool, is
+keyed `name #n` in print order. Each `LC_LINKER_OPTION` string is keyed
+`string #n` and checked against the declared `count`. Evidence locations map the LC_MAIN entrypoint and nonempty file-backed segment
 ranges to container offsets by adding the observed slice offset. Zero-fill
 segments do not produce file ranges. When the selected slice's container offset
 is unknown, those mapped locations are omitted with an explicit limitation;
@@ -495,7 +497,7 @@ is present. A denied trace reports the `debugger-attach-denied` reason.
 Install a Ghidra 12.1.x release and the 64-bit full JDK it declares, then configure REA to
 use them. Ghidra analysis supports Linux x64/arm64 and macOS x64/arm64; each installation requires
 the matching native decompiler. Experimental Windows x64 P0 admits native
-x86 and x86-64 PE applications and DLLs, plus explicitly selected
+x86, x86-64, ARMNT (Thumb-2) and ARM64 PE applications and DLLs, plus explicitly selected
 [raw NMOS 6502 images](raw-binary.md#nmos-6502) with a caller-supplied load address,
 on fixed local NTFS volumes. Other raw CPU families remain unsupported on Windows.
 The boundary uses bundled Job Object ownership, protected runtime DACLs, and

docs/readme/README_ar.md

@@ -166,7 +166,7 @@ npx rea-agents@latest setup
 
 <a id="choosing-a-deep-analysis-provider"></a>
 
-تختلف صيغ ملفات الشيفرة الأصلية والأنظمة المضيفة المدعومة باختلاف الموفّر. راجع [إعداد Hopper وGhidra](../installation.md#hopper)، و[دليل IDA](../ida-provider.md)، و[دعم Ghidra التجريبي على Windows](../windows-ghidra-p0.md). يدعم Ghidra أيضًا [تحليل DOS ذي 16 بت](../ghidra-dos.md). لاختيار الموفّر، راجع [دليل CLI](../cli.md#choose-a-provider). تحقّق من [توفر الميزات في الإصدارات](../installation.md#released-package-and-main) للميزات المضافة بعد أحدث إصدار على npm.
+تختلف صيغ ملفات الشيفرة الأصلية والأنظمة المضيفة المدعومة باختلاف الموفّر. راجع [إعداد Hopper وGhidra](../installation.md#hopper)، و[دليل IDA](../ida-provider.md)، [Kuna](../kuna-provider.md)، و[دعم Ghidra التجريبي على Windows](../windows-ghidra-p0.md). يدعم Ghidra أيضًا [تحليل DOS ذي 16 بت](../ghidra-dos.md). لاختيار الموفّر، راجع [دليل CLI](../cli.md#choose-a-provider). تحقّق من [توفر الميزات في الإصدارات](../installation.md#released-package-and-main) للميزات المضافة بعد أحدث إصدار على npm.
 
 ## دراسات الحالة
 

docs/readme/README_de.md

@@ -166,7 +166,7 @@ Statische JavaScript- und .NET-Untersuchungen lesen die bereitgestellten Dateien
 
 <a id="choosing-a-deep-analysis-provider"></a>
 
-Native Formate und unterstützte Hostsysteme unterscheiden sich je nach Provider. Siehe [Hopper- und Ghidra-Einrichtung](../installation.md#hopper), den [IDA-Leitfaden](../ida-provider.md) und die [experimentelle Ghidra-Unterstützung unter Windows](../windows-ghidra-p0.md). Ghidra unterstützt auch [16-Bit-DOS-Analyse](../ghidra-dos.md). Die Provider-Auswahl beschreibt der [CLI-Leitfaden](../cli.md#choose-a-provider). Prüfe die [Verfügbarkeit in Releases](../installation.md#released-package-and-main) für Funktionen, die seit der neuesten npm-Version hinzugekommen sind.
+Native Formate und unterstützte Hostsysteme unterscheiden sich je nach Provider. Siehe [Hopper- und Ghidra-Einrichtung](../installation.md#hopper), den [IDA-Leitfaden](../ida-provider.md), [Kuna](../kuna-provider.md) und die [experimentelle Ghidra-Unterstützung unter Windows](../windows-ghidra-p0.md). Ghidra unterstützt auch [16-Bit-DOS-Analyse](../ghidra-dos.md). Die Provider-Auswahl beschreibt der [CLI-Leitfaden](../cli.md#choose-a-provider). Prüfe die [Verfügbarkeit in Releases](../installation.md#released-package-and-main) für Funktionen, die seit der neuesten npm-Version hinzugekommen sind.
 
 ## Fallstudien
 

docs/readme/README_el.md

@@ -179,7 +179,7 @@ npx rea-agents@latest setup
 
 <a id="choosing-a-deep-analysis-provider"></a>
 
-Οι μορφές κώδικα μηχανής και τα υποστηριζόμενα συστήματα διαφέρουν ανά πάροχο ανάλυσης. Δες τη [ρύθμιση Hopper και Ghidra](../installation.md#hopper), τον [οδηγό IDA](../ida-provider.md) (που περιλαμβάνει προαιρετική γέφυρα MCP για κώδικα μηχανής) και την [πειραματική υποστήριξη Ghidra στα Windows](../windows-ghidra-p0.md). Το Ghidra υποστηρίζει επίσης [ανάλυση DOS 16 bit](../ghidra-dos.md). Για μεγάλα δυαδικά αρχεία, αύξησε το χρονικό όριο εκκίνησης του παρόχου με `REA_GHIDRA_STARTUP_TIMEOUT_MS` ή `REA_HOPPER_STARTUP_TIMEOUT_MS`. Για την επιλογή παρόχου, δες τον [οδηγό CLI](../cli.md#choose-a-provider). Έλεγξε τη [διαθεσιμότητα ανά έκδοση](../installation.md#released-package-and-main) για λειτουργίες που προστέθηκαν μετά την τελευταία έκδοση στο npm.
+Οι μορφές κώδικα μηχανής και τα υποστηριζόμενα συστήματα διαφέρουν ανά πάροχο ανάλυσης. Δες τη [ρύθμιση Hopper και Ghidra](../installation.md#hopper), τον [οδηγό IDA](../ida-provider.md) (που περιλαμβάνει προαιρετική γέφυρα MCP για κώδικα μηχανής), [Kuna](../kuna-provider.md) και την [πειραματική υποστήριξη Ghidra στα Windows](../windows-ghidra-p0.md). Το Ghidra υποστηρίζει επίσης [ανάλυση DOS 16 bit](../ghidra-dos.md). Για μεγάλα δυαδικά αρχεία, αύξησε το χρονικό όριο εκκίνησης του παρόχου με `REA_GHIDRA_STARTUP_TIMEOUT_MS` ή `REA_HOPPER_STARTUP_TIMEOUT_MS`. Για την επιλογή παρόχου, δες τον [οδηγό CLI](../cli.md#choose-a-provider). Έλεγξε τη [διαθεσιμότητα ανά έκδοση](../installation.md#released-package-and-main) για λειτουργίες που προστέθηκαν μετά την τελευταία έκδοση στο npm.
 
 ## Μελέτες περίπτωσης
 

docs/readme/README_es.md

@@ -166,7 +166,7 @@ La inspección estática de JavaScript y .NET lee los archivos suministrados sin
 
 <a id="choosing-a-deep-analysis-provider"></a>
 
-Los formatos nativos y los sistemas anfitriones compatibles varían según el proveedor. Consulta [configuración de Hopper y Ghidra](../installation.md#hopper), la [guía de IDA](../ida-provider.md) y la [compatibilidad experimental de Ghidra en Windows](../windows-ghidra-p0.md). Ghidra también admite [análisis de DOS de 16 bits](../ghidra-dos.md). Para elegir un proveedor, consulta la [guía de CLI](../cli.md#choose-a-provider). Comprueba la [disponibilidad por versión](../installation.md#released-package-and-main) de las funciones añadidas después de la última versión publicada en npm.
+Los formatos nativos y los sistemas anfitriones compatibles varían según el proveedor. Consulta [configuración de Hopper y Ghidra](../installation.md#hopper), la [guía de IDA](../ida-provider.md), [Kuna](../kuna-provider.md) y la [compatibilidad experimental de Ghidra en Windows](../windows-ghidra-p0.md). Ghidra también admite [análisis de DOS de 16 bits](../ghidra-dos.md). Para elegir un proveedor, consulta la [guía de CLI](../cli.md#choose-a-provider). Comprueba la [disponibilidad por versión](../installation.md#released-package-and-main) de las funciones añadidas después de la última versión publicada en npm.
 
 ## Casos prácticos
 

docs/readme/README_fa.md

@@ -158,7 +158,7 @@ REA به Node.js 22.x (>=22.19)، 24.x (>=24.11) یا 26+، به‌همراه np
 
 <a id="choosing-a-deep-analysis-provider"></a>
 
-فرمت‌های بومی و پشتیبانی سیستم میزبان بر اساس ارائه‌دهنده متفاوت‌اند. [راه‌اندازی Hopper و Ghidra](../installation.md#hopper)، [راهنمای IDA](../ida-provider.md) و [پشتیبانی آزمایشی Ghidra در ویندوز](../windows-ghidra-p0.md) را ببینید. Ghidra همچنین از [تحلیل DOS شانزده‌بیتی](../ghidra-dos.md) پشتیبانی می‌کند. برای انتخاب ارائه‌دهنده، به [راهنمای CLI](../cli.md#choose-a-provider) مراجعه کنید. برای قابلیت‌هایی که پس از آخرین انتشار npm اضافه شده‌اند، [وضعیت انتشار](../installation.md#released-package-and-main) را بررسی کنید.
+فرمت‌های بومی و پشتیبانی سیستم میزبان بر اساس ارائه‌دهنده متفاوت‌اند. [راه‌اندازی Hopper و Ghidra](../installation.md#hopper)، [راهنمای IDA](../ida-provider.md)، [Kuna](../kuna-provider.md) و [پشتیبانی آزمایشی Ghidra در ویندوز](../windows-ghidra-p0.md) را ببینید. Ghidra همچنین از [تحلیل DOS شانزده‌بیتی](../ghidra-dos.md) پشتیبانی می‌کند. برای انتخاب ارائه‌دهنده، به [راهنمای CLI](../cli.md#choose-a-provider) مراجعه کنید. برای قابلیت‌هایی که پس از آخرین انتشار npm اضافه شده‌اند، [وضعیت انتشار](../installation.md#released-package-and-main) را بررسی کنید.
 
 ## نمونه‌های عملی
 

docs/readme/README_fr.md

@@ -170,7 +170,7 @@ L'inspection statique JavaScript et .NET lit les fichiers fournis sans exécuter
 
 <a id="choosing-a-deep-analysis-provider"></a>
 
-Les formats natifs et les hôtes pris en charge varient selon le fournisseur. Consultez [la configuration de Hopper et Ghidra](../installation.md#hopper), le [guide IDA](../ida-provider.md) et [la prise en charge expérimentale de Ghidra sous Windows](../windows-ghidra-p0.md). Ghidra prend aussi en charge [l'analyse DOS 16 bits](../ghidra-dos.md). Pour les gros binaires, augmentez son délai de démarrage avec `REA_GHIDRA_STARTUP_TIMEOUT_MS`. Pour le choix du fournisseur, consultez le [guide CLI](../cli.md#choose-a-provider). Vérifiez la [disponibilité dans les versions publiées](../installation.md#released-package-and-main) pour les fonctionnalités ajoutées depuis la dernière version npm.
+Les formats natifs et les hôtes pris en charge varient selon le fournisseur. Consultez [la configuration de Hopper et Ghidra](../installation.md#hopper), le [guide IDA](../ida-provider.md), [Kuna](../kuna-provider.md) et [la prise en charge expérimentale de Ghidra sous Windows](../windows-ghidra-p0.md). Ghidra prend aussi en charge [l'analyse DOS 16 bits](../ghidra-dos.md). Pour les gros binaires, augmentez son délai de démarrage avec `REA_GHIDRA_STARTUP_TIMEOUT_MS`. Pour le choix du fournisseur, consultez le [guide CLI](../cli.md#choose-a-provider). Vérifiez la [disponibilité dans les versions publiées](../installation.md#released-package-and-main) pour les fonctionnalités ajoutées depuis la dernière version npm.
 
 ## Études de cas
 

docs/readme/README_id.md

@@ -173,7 +173,7 @@ Pemeriksaan JavaScript dan .NET statis membaca berkas yang disediakan tanpa menj
 
 <a id="choosing-a-deep-analysis-provider"></a>
 
-Format native dan dukungan sistem host berbeda-beda menurut penyedia. Lihat [penyiapan Hopper dan Ghidra](../installation.md#hopper), [panduan IDA](../ida-provider.md), dan [dukungan eksperimental Ghidra di Windows](../windows-ghidra-p0.md).
+Format native dan dukungan sistem host berbeda-beda menurut penyedia. Lihat [penyiapan Hopper dan Ghidra](../installation.md#hopper), [panduan IDA](../ida-provider.md), [Kuna](../kuna-provider.md), dan [dukungan eksperimental Ghidra di Windows](../windows-ghidra-p0.md).
 
 Ghidra juga mendukung [analisis DOS 16-bit](../ghidra-dos.md).
 

docs/readme/README_it.md

@@ -170,7 +170,7 @@ L'ispezione statica di JavaScript e .NET legge i file forniti senza eseguire l'a
 
 <a id="choosing-a-deep-analysis-provider"></a>
 
-I formati nativi e il supporto host variano in base al provider. Vedi la [configurazione di Hopper e Ghidra](../installation.md#hopper), la [guida IDA](../ida-provider.md) e il [supporto sperimentale Windows Ghidra](../windows-ghidra-p0.md). Ghidra supporta anche l'[analisi DOS a 16 bit](../ghidra-dos.md). Per binari di grandi dimensioni, aumenta il timeout di avvio con `REA_GHIDRA_STARTUP_TIMEOUT_MS`. Per la selezione del provider, vedi la [guida CLI](../cli.md#choose-a-provider). Controlla la [disponibilità delle release](../installation.md#released-package-and-main) per le funzionalità aggiunte dall'ultima release npm.
+I formati nativi e il supporto host variano in base al provider. Vedi la [configurazione di Hopper e Ghidra](../installation.md#hopper), la [guida IDA](../ida-provider.md), [Kuna](../kuna-provider.md) e il [supporto sperimentale Windows Ghidra](../windows-ghidra-p0.md). Ghidra supporta anche l'[analisi DOS a 16 bit](../ghidra-dos.md). Per binari di grandi dimensioni, aumenta il timeout di avvio con `REA_GHIDRA_STARTUP_TIMEOUT_MS`. Per la selezione del provider, vedi la [guida CLI](../cli.md#choose-a-provider). Controlla la [disponibilità delle release](../installation.md#released-package-and-main) per le funzionalità aggiunte dall'ultima release npm.
 
 ## Showcase
 

docs/readme/README_ja.md

@@ -166,7 +166,7 @@ REA には Node.js 22.x（>=22.19）、24.x（>=24.11）、または 26+ と npm
 
 <a id="choosing-a-deep-analysis-provider"></a>
 
-対応するネイティブ形式とホストは、プロバイダーによって異なります。[Hopper と Ghidra のセットアップ](../installation.md#hopper)、[IDA ガイド](../ida-provider.md)、[Windows 向け Ghidra の実験的対応](../windows-ghidra-p0.md)を参照してください。Ghidra は [16 ビット DOS 分析](../ghidra-dos.md)にも対応しています。プロバイダーの選択は [CLI ガイド](../cli.md#choose-a-provider)を参照してください。最新の npm リリース以降に追加された機能については、[リリースでの利用可否](../installation.md#released-package-and-main)を確認してください。
+対応するネイティブ形式とホストは、プロバイダーによって異なります。[Hopper と Ghidra のセットアップ](../installation.md#hopper)、[IDA ガイド](../ida-provider.md)、[Kuna](../kuna-provider.md)、[Windows 向け Ghidra の実験的対応](../windows-ghidra-p0.md)を参照してください。Ghidra は [16 ビット DOS 分析](../ghidra-dos.md)にも対応しています。プロバイダーの選択は [CLI ガイド](../cli.md#choose-a-provider)を参照してください。最新の npm リリース以降に追加された機能については、[リリースでの利用可否](../installation.md#released-package-and-main)を確認してください。
 
 ## 事例
 

docs/readme/README_ko.md

@@ -175,7 +175,7 @@ REA에는 Node.js 22.x(>=22.19), 24.x(>=24.11) 또는 26+와 npm이 필요합니
 
 <a id="choosing-a-deep-analysis-provider"></a>
 
-지원하는 네이티브 형식과 호스트는 제공자마다 다릅니다. [Hopper 및 Ghidra 설정](../installation.md#hopper), [IDA 가이드](../ida-provider.md)(선택 사항인 네이티브 MCP 브리지 포함), [실험적 Windows Ghidra 지원](../windows-ghidra-p0.md)을 참고하세요. Ghidra는 [16비트 DOS 분석](../ghidra-dos.md)도 지원합니다. 큰 바이너리를 분석할 때는 `REA_GHIDRA_STARTUP_TIMEOUT_MS` 또는 `REA_HOPPER_STARTUP_TIMEOUT_MS`로 제공자의 시작 제한 시간을 늘리세요. 제공자 선택은 [CLI 가이드](../cli.md#choose-a-provider)를 참고하세요. 최신 npm 릴리스 이후 추가된 기능은 [릴리스에서의 사용 가능 여부](../installation.md#released-package-and-main)를 확인하세요.
+지원하는 네이티브 형식과 호스트는 제공자마다 다릅니다. [Hopper 및 Ghidra 설정](../installation.md#hopper), [IDA 가이드](../ida-provider.md)(선택 사항인 네이티브 MCP 브리지 포함), [Kuna](../kuna-provider.md), [실험적 Windows Ghidra 지원](../windows-ghidra-p0.md)을 참고하세요. Ghidra는 [16비트 DOS 분석](../ghidra-dos.md)도 지원합니다. 큰 바이너리를 분석할 때는 `REA_GHIDRA_STARTUP_TIMEOUT_MS` 또는 `REA_HOPPER_STARTUP_TIMEOUT_MS`로 제공자의 시작 제한 시간을 늘리세요. 제공자 선택은 [CLI 가이드](../cli.md#choose-a-provider)를 참고하세요. 최신 npm 릴리스 이후 추가된 기능은 [릴리스에서의 사용 가능 여부](../installation.md#released-package-and-main)를 확인하세요.
 
 ## 사례
 

docs/readme/README_pl.md

@@ -166,7 +166,7 @@ Statyczna analiza JavaScript i .NET odczytuje dostarczone pliki bez uruchamiania
 
 <a id="choosing-a-deep-analysis-provider"></a>
 
-Obsługiwane formaty natywne i platformy zależą od dostawcy analizy. Zobacz [konfigurację Hoppera i Ghidry](../installation.md#hopper), [przewodnik IDA](../ida-provider.md) oraz [eksperymentalną obsługę Ghidry w systemie Windows](../windows-ghidra-p0.md). Ghidra obsługuje też [analizę 16-bitowego DOS-a](../ghidra-dos.md). Wybór dostawcy opisuje [przewodnik CLI](../cli.md#choose-a-provider). Sprawdź [dostępność w wydaniach](../installation.md#released-package-and-main) dla funkcji dodanych po najnowszym wydaniu npm.
+Obsługiwane formaty natywne i platformy zależą od dostawcy analizy. Zobacz [konfigurację Hoppera i Ghidry](../installation.md#hopper), [przewodnik IDA](../ida-provider.md), [Kuna](../kuna-provider.md) oraz [eksperymentalną obsługę Ghidry w systemie Windows](../windows-ghidra-p0.md). Ghidra obsługuje też [analizę 16-bitowego DOS-a](../ghidra-dos.md). Wybór dostawcy opisuje [przewodnik CLI](../cli.md#choose-a-provider). Sprawdź [dostępność w wydaniach](../installation.md#released-package-and-main) dla funkcji dodanych po najnowszym wydaniu npm.
 
 ## Przykłady zastosowań
 

docs/readme/README_pt-BR.md

@@ -166,7 +166,7 @@ A inspeção estática de JavaScript e .NET lê os arquivos fornecidos sem execu
 
 <a id="choosing-a-deep-analysis-provider"></a>
 
-Os formatos nativos e os sistemas anfitriões compatíveis variam por provedor. Consulte [configuração do Hopper e Ghidra](../installation.md#hopper), o [guia do IDA](../ida-provider.md) e o [suporte experimental ao Ghidra no Windows](../windows-ghidra-p0.md). O Ghidra também oferece [análise de DOS de 16 bits](../ghidra-dos.md). Para selecionar um provedor, consulte o [guia da CLI](../cli.md#choose-a-provider). Verifique a [disponibilidade nas versões](../installation.md#released-package-and-main) das funcionalidades adicionadas após a versão mais recente no npm.
+Os formatos nativos e os sistemas anfitriões compatíveis variam por provedor. Consulte [configuração do Hopper e Ghidra](../installation.md#hopper), o [guia do IDA](../ida-provider.md), [Kuna](../kuna-provider.md) e o [suporte experimental ao Ghidra no Windows](../windows-ghidra-p0.md). O Ghidra também oferece [análise de DOS de 16 bits](../ghidra-dos.md). Para selecionar um provedor, consulte o [guia da CLI](../cli.md#choose-a-provider). Verifique a [disponibilidade nas versões](../installation.md#released-package-and-main) das funcionalidades adicionadas após a versão mais recente no npm.
 
 ## Casos de uso
 

docs/readme/README_ru.md

@@ -166,7 +166,7 @@ REA требует Node.js 22.x (>=22.19), 24.x (>=24.11) или 26+, а так
 
 <a id="choosing-a-deep-analysis-provider"></a>
 
-Нативные форматы и поддерживаемые системы различаются у разных провайдеров. См. [настройку Hopper и Ghidra](../installation.md#hopper), [руководство по IDA](../ida-provider.md) и [экспериментальную поддержку Ghidra в Windows](../windows-ghidra-p0.md). Ghidra также поддерживает [анализ 16-битного DOS](../ghidra-dos.md). Выбор провайдера описан в [руководстве по CLI](../cli.md#choose-a-provider). Для функций, добавленных после последней версии в npm, проверьте [доступность в релизах](../installation.md#released-package-and-main).
+Нативные форматы и поддерживаемые системы различаются у разных провайдеров. См. [настройку Hopper и Ghidra](../installation.md#hopper), [руководство по IDA](../ida-provider.md), [Kuna](../kuna-provider.md) и [экспериментальную поддержку Ghidra в Windows](../windows-ghidra-p0.md). Ghidra также поддерживает [анализ 16-битного DOS](../ghidra-dos.md). Выбор провайдера описан в [руководстве по CLI](../cli.md#choose-a-provider). Для функций, добавленных после последней версии в npm, проверьте [доступность в релизах](../installation.md#released-package-and-main).
 
 ## Примеры
 

docs/readme/README_th.md

@@ -166,7 +166,7 @@ REA ต้องใช้ Node.js 22.x (>=22.19), 24.x (>=24.11) หรือ 26
 
 <a id="choosing-a-deep-analysis-provider"></a>
 
-รูปแบบไบนารีเนทีฟและแพลตฟอร์มที่รองรับแตกต่างกันตามผู้ให้บริการวิเคราะห์ ดู[การตั้งค่า Hopper และ Ghidra](../installation.md#hopper), [คู่มือ IDA](../ida-provider.md) และ[การรองรับ Ghidra บน Windows แบบทดลอง](../windows-ghidra-p0.md) Ghidra ยังรองรับ[การวิเคราะห์ DOS แบบ 16 บิต](../ghidra-dos.md) สำหรับการเลือกผู้ให้บริการ ดู[คู่มือ CLI](../cli.md#choose-a-provider) ตรวจสอบ[ความพร้อมใช้งานในแต่ละรุ่น](../installation.md#released-package-and-main) สำหรับฟีเจอร์ที่เพิ่มหลังรุ่นล่าสุดบน npm
+รูปแบบไบนารีเนทีฟและแพลตฟอร์มที่รองรับแตกต่างกันตามผู้ให้บริการวิเคราะห์ ดู[การตั้งค่า Hopper และ Ghidra](../installation.md#hopper), [คู่มือ IDA](../ida-provider.md) [Kuna](../kuna-provider.md) และ[การรองรับ Ghidra บน Windows แบบทดลอง](../windows-ghidra-p0.md) Ghidra ยังรองรับ[การวิเคราะห์ DOS แบบ 16 บิต](../ghidra-dos.md) สำหรับการเลือกผู้ให้บริการ ดู[คู่มือ CLI](../cli.md#choose-a-provider) ตรวจสอบ[ความพร้อมใช้งานในแต่ละรุ่น](../installation.md#released-package-and-main) สำหรับฟีเจอร์ที่เพิ่มหลังรุ่นล่าสุดบน npm
 
 ## ตัวอย่างการใช้งาน
 

docs/readme/README_tr.md

@@ -171,7 +171,7 @@ Statik JavaScript ve .NET incelemesi, uygulamayı çalıştırmadan sağlanan do
 
 <a id="choosing-a-deep-analysis-provider"></a>
 
-Yerel makine kodu içeren ikili dosya biçimleri ve ana bilgisayar desteği sağlayıcıya göre değişir. [Hopper ve Ghidra kurulumu](../installation.md#hopper), isteğe bağlı native MCP bridge'i de açıklayan [IDA rehberi](../ida-provider.md) ve [Windows için deneysel Ghidra desteği](../windows-ghidra-p0.md) belgelerine bakın. Ghidra ayrıca [16 bit DOS analizini](../ghidra-dos.md) destekler. Büyük ikili dosyalar için sağlayıcının başlatma zaman aşımını `REA_GHIDRA_STARTUP_TIMEOUT_MS` veya `REA_HOPPER_STARTUP_TIMEOUT_MS` ile artırın. Sağlayıcı seçimi için [CLI rehberine](../cli.md#choose-a-provider) bakın. En son npm sürümünden sonra eklenen özellikler için [sürümlerde kullanılabilirliği](../installation.md#released-package-and-main) kontrol edin.
+Yerel makine kodu içeren ikili dosya biçimleri ve ana bilgisayar desteği sağlayıcıya göre değişir. [Hopper ve Ghidra kurulumu](../installation.md#hopper), isteğe bağlı native MCP bridge'i de açıklayan [IDA rehberi](../ida-provider.md), [Kuna](../kuna-provider.md) ve [Windows için deneysel Ghidra desteği](../windows-ghidra-p0.md) belgelerine bakın. Ghidra ayrıca [16 bit DOS analizini](../ghidra-dos.md) destekler. Büyük ikili dosyalar için sağlayıcının başlatma zaman aşımını `REA_GHIDRA_STARTUP_TIMEOUT_MS` veya `REA_HOPPER_STARTUP_TIMEOUT_MS` ile artırın. Sağlayıcı seçimi için [CLI rehberine](../cli.md#choose-a-provider) bakın. En son npm sürümünden sonra eklenen özellikler için [sürümlerde kullanılabilirliği](../installation.md#released-package-and-main) kontrol edin.
 
 ## Örnek çalışmalar
 

docs/readme/README_uk.md

@@ -166,7 +166,7 @@ REA потребує Node.js 22.x (>=22.19), 24.x (>=24.11) або 26+, а та
 
 <a id="choosing-a-deep-analysis-provider"></a>
 
-Нативні формати й підтримка систем відрізняються залежно від провайдера. Дивіться [налаштування Hopper і Ghidra](../installation.md#hopper), [посібник IDA](../ida-provider.md) та [експериментальну підтримку Ghidra у Windows](../windows-ghidra-p0.md). Ghidra також підтримує [аналіз 16-бітного DOS](../ghidra-dos.md). Для вибору провайдера дивіться [посібник CLI](../cli.md#choose-a-provider). Для функцій, доданих після найновішої версії в npm, перевірте [доступність у випусках](../installation.md#released-package-and-main).
+Нативні формати й підтримка систем відрізняються залежно від провайдера. Дивіться [налаштування Hopper і Ghidra](../installation.md#hopper), [посібник IDA](../ida-provider.md), [Kuna](../kuna-provider.md) та [експериментальну підтримку Ghidra у Windows](../windows-ghidra-p0.md). Ghidra також підтримує [аналіз 16-бітного DOS](../ghidra-dos.md). Для вибору провайдера дивіться [посібник CLI](../cli.md#choose-a-provider). Для функцій, доданих після найновішої версії в npm, перевірте [доступність у випусках](../installation.md#released-package-and-main).
 
 ## Приклади
 

docs/readme/README_vi.md

@@ -166,7 +166,7 @@ Kiểm tra tĩnh JavaScript và .NET đọc các tệp được cung cấp mà k
 
 <a id="choosing-a-deep-analysis-provider"></a>
 
-Định dạng mã máy và nền tảng chạy REA được hỗ trợ khác nhau tùy trình phân tích. Xem [thiết lập Hopper và Ghidra](../installation.md#hopper), [hướng dẫn IDA](../ida-provider.md) và [hỗ trợ Ghidra thử nghiệm trên Windows](../windows-ghidra-p0.md). Ghidra cũng hỗ trợ [phân tích DOS 16 bit](../ghidra-dos.md). Để chọn trình phân tích, xem [hướng dẫn CLI](../cli.md#choose-a-provider). Kiểm tra [khả năng sử dụng theo bản phát hành](../installation.md#released-package-and-main) đối với tính năng được bổ sung sau phiên bản npm mới nhất.
+Định dạng mã máy và nền tảng chạy REA được hỗ trợ khác nhau tùy trình phân tích. Xem [thiết lập Hopper và Ghidra](../installation.md#hopper), [hướng dẫn IDA](../ida-provider.md), [Kuna](../kuna-provider.md) và [hỗ trợ Ghidra thử nghiệm trên Windows](../windows-ghidra-p0.md). Ghidra cũng hỗ trợ [phân tích DOS 16 bit](../ghidra-dos.md). Để chọn trình phân tích, xem [hướng dẫn CLI](../cli.md#choose-a-provider). Kiểm tra [khả năng sử dụng theo bản phát hành](../installation.md#released-package-and-main) đối với tính năng được bổ sung sau phiên bản npm mới nhất.
 
 ## Các nghiên cứu điển hình
 

docs/readme/README_zh-TW.md

@@ -170,7 +170,7 @@ REA 需要 Node.js 22.x（>=22.19）、24.x（>=24.11）或 26+，以及 npm。
 
 <a id="choosing-a-deep-analysis-provider"></a>
 
-不同提供者支援的原生格式和主機系統有所不同。請參閱 [Hopper 與 Ghidra 設定](../installation.md#hopper)、[IDA 指南](../ida-provider.md)和[實驗性 Windows Ghidra 支援](../windows-ghidra-p0.md)。Ghidra 也支援 [16 位 DOS 分析](../ghidra-dos.md)。提供者選擇見 [CLI 指南](../cli.md#choose-a-provider)。對於最新 npm 版本發佈後新增的功能，請查看[發佈可用性](../installation.md#released-package-and-main)。
+不同提供者支援的原生格式和主機系統有所不同。請參閱 [Hopper 與 Ghidra 設定](../installation.md#hopper)、[IDA 指南](../ida-provider.md)、[Kuna](../kuna-provider.md)和[實驗性 Windows Ghidra 支援](../windows-ghidra-p0.md)。Ghidra 也支援 [16 位 DOS 分析](../ghidra-dos.md)。提供者選擇見 [CLI 指南](../cli.md#choose-a-provider)。對於最新 npm 版本發佈後新增的功能，請查看[發佈可用性](../installation.md#released-package-and-main)。
 
 ## 案例
 

docs/readme/README_zh.md

@@ -170,7 +170,7 @@ REA 需要 Node.js 22.x（>=22.19）、24.x（>=24.11）或 26+，以及 npm。
 
 <a id="choosing-a-deep-analysis-provider"></a>
 
-不同提供方支持的原生格式和主机系统有所不同。请参阅 [Hopper 与 Ghidra 设置](../installation.md#hopper)、[IDA 指南](../ida-provider.md)和[实验性 Windows Ghidra 支持](../windows-ghidra-p0.md)。Ghidra 也支持 [16 位 DOS 分析](../ghidra-dos.md)。提供方选择见 [CLI 指南](../cli.md#choose-a-provider)。对于最新 npm 版本发布后新增的功能，请查看[发布可用性](../installation.md#released-package-and-main)。
+不同提供方支持的原生格式和主机系统有所不同。请参阅 [Hopper 与 Ghidra 设置](../installation.md#hopper)、[IDA 指南](../ida-provider.md)、[Kuna](../kuna-provider.md)和[实验性 Windows Ghidra 支持](../windows-ghidra-p0.md)。Ghidra 也支持 [16 位 DOS 分析](../ghidra-dos.md)。提供方选择见 [CLI 指南](../cli.md#choose-a-provider)。对于最新 npm 版本发布后新增的功能，请查看[发布可用性](../installation.md#released-package-and-main)。
 
 ## 案例
 

docs/reconstruction-coverage.md

@@ -0,0 +1,43 @@
+# Reconstruction coverage
+
+`rea evaluate-reconstruction-coverage coverage.json --json` evaluates an inline
+coverage workspace and its selected `boundary_id`. MCP exposes the same input
+through `evaluate_reconstruction_coverage`. Results contain a status, reasons,
+recommended probes and Evidence references; the supplied bundle retains the
+complete records.
+
+Evidence IDs and bundle manifests must authenticate before evaluation. A valid
+record can still be insufficient proof: a passing verifier summary cannot
+promote inferred Evidence into a replay observation. That case returns
+`unknown`, while a missing or tampered record remains an input error.
+
+## Comparable verifier Evidence
+
+At least one record explicitly cited by the latest verifier observation must
+support the declared contract authority:
+
+| Contract authority  | Evidence source                           | Confidence              |
+| ------------------- | ----------------------------------------- | ----------------------- |
+| `shipped-artifact`  | `shipped-artifact`                        | `observed` or `derived` |
+| `controlled-replay` | `controlled-replay`                       | `observed`              |
+| `live-observation`  | `controlled-replay` or `external-service` | `observed`              |
+| `external`          | `external-service`                        | `observed`              |
+
+Contextual references can accompany qualifying proof. An unrelated observed
+record elsewhere in the bundle cannot repair a result that cites only
+inference. Older observed results cannot replace the newest weak result.
+Equivalent observations at the same instant can share qualifying proof from
+one of those observations; conflicting tied assessments remain unknown.
+
+## Package and integration proof
+
+Build, clean-install and runtime-routing claims require observed runtime
+Evidence (`controlled-replay` or `external-service`). Package-content and
+authority-independence audits can also use observed or derived
+`shipped-artifact` Evidence. Each proof must cite its qualifying records and
+cover the selected boundary's artifact digests. An inference alone establishes
+neither a passing nor a failed package workflow.
+
+The evaluator preserves Evidence provenance and returns an actionable unknown
+when qualification is unavailable. It does not change the cited records to
+make their authority match a caller's declaration.

docs/reconstruction-obligation-ledgers.md

@@ -323,3 +323,6 @@ disposition but does not silently count it as verified.
 The tool returns every obligation inline. Its `ledger_id` and `closure_digest`
 identify the complete result, including summaries, reports, ownership and
 dependency graphs, Evidence links, and limitations.
+
+For named boundaries with explicit verifier contracts and package-proof kinds,
+see [reconstruction coverage](reconstruction-coverage.md).

docs/reverse-engineering-tools.md

@@ -16,11 +16,12 @@ can run.
 
 `inspect_with_objdump` and `rea inspect-with-objdump` capture stdout and stderr as inline Evidence. Artifact inspection Evidence records SHA-256 digests before and after the provider call and whether those observed digests differ; this cannot prove the exact bytes consumed if the artifact changes during execution. Choose one artifact operation: `file_headers`, `section_headers`, `symbols`, `relocations`, `dwarf`, `disassemble`, or `disassemble_all`. `disassemble` maps to `-d`; `disassemble_all` maps to `-D` and has different symbol-boundary semantics. The pathless `inspect_with_objdump {"operation":"architectures"}` MCP call or `rea list-objdump-architectures` CLI command maps to `-i` and produces subjectless provider-capability Evidence describing BFD targets compiled into the installed binary, not a guarantee that a target is supported.
 
-For DWARF, REA does not follow local debug links by default. Set `follow_debug_links` to `true` to pass `-WK`; external debug-file identities are not bound to Evidence when following links is enabled. The CLI option is `--follow-debug-links true`. REA clears `DEBUGINFOD_URLS` in the objdump child environment to disable debuginfod network access on GNU binutils versions that do not support `-WE`. The complete raw output is authoritative; REA does not normalize it into a version-independent disassembly schema.
+For DWARF, REA does not follow local debug links by default. Set `follow_debug_links` to `true` to pass `-WK`; external debug-file identities are not bound to Evidence when following links is enabled. The CLI flag is `--follow-debug-links`; `--no-follow-debug-links` or `--follow-debug-links=false` keeps the default. A separate `true` or `false` word after the flag is not its value. REA clears `DEBUGINFOD_URLS` in the objdump child environment to disable debuginfod network access on GNU binutils versions that do not support `-WE`. The complete raw output is authoritative; REA does not normalize it into a version-independent disassembly schema.
 
 ```sh
 rea inspect-with-objdump ./program disassemble
-rea inspect-with-objdump ./program dwarf --follow-debug-links false
+rea inspect-with-objdump ./program dwarf
+rea inspect-with-objdump ./program dwarf --follow-debug-links
 ```
 
 Captured stdout and stderr are retained up to a 16 MiB combined limit; `output_truncated` marks output beyond that limit.

docs/testing.md

@@ -817,6 +817,38 @@ Native IDA MCP verification uses `"protocol": "native"` with an already-running
 
 The initial Linux x64 IDA Free 9.4 run used native MCP 1.1.2 with a local navigation correction. Windows x64 verification uses **IDA Pro 9.3**, the two-function public fixture, and the shipped Windows `whoami.exe` application. The native plugin was built from upstream `c9d15d98e8a143fc74f6e14037c48f63889b6d6c`, including the merged navigation fix, with a local loopback-listener change. Production CLI/MCP parity, switching, identity and cleanup passed. Correctness and performance measurements are recorded in the [Windows native verification notes](https://github.com/morluto/rea/blob/main/experiments/analysis-efficiency/ida-native-windows.md). Stock 1.1.2 switching, native macOS, and Windows IDA Free remain unverified. See the [native bridge prerequisites](ida-provider.md#optional-native-ida-mcp-bridge).
 
+## Kuna lane
+
+`npm run verify:kuna` requires a caller-supplied `kuna` in `REA_KUNA_COMMAND`
+and a host C compiler (`REA_CC`, default `cc`) with `strip` and `nm`. It builds a
+source-owned fixture with non-inlined calls, with symbols and stripped, then verifies through MCP that
+callers, callees and exact incoming xrefs agree with those calls, graph/path
+composition reaches the callee, reference-only queries leave project/staging
+entries unchanged, repeated relationships reuse the graph, and
+the first cold pseudocode answer comes from a single-function run or an export
+that already finished, assembly waits for and serves from that export, and
+pseudocode and both dossier facets match their recorded file spans and digests,
+a fresh server reuses the export without rebuilding it, staging is empty after
+a completed export, and no owned process survives. Pass
+`--targets DIR --functions a,b` to add caller-built binaries laid out as
+`DIR/<flavor>/<name>` beside `<name>.stripped`; addresses come from the
+symbol-bearing build. `--compare-ghidra` with `GHIDRA_INSTALL_DIR` runs those
+caller-built functions through Ghidra (it refuses to run without `--targets` and
+`--functions`, an empty matrix, or names missing from every supplied target) and
+reports latency, sampled process-tree CPU and peak memory, UTF-8 response size,
+and goto and warning-marker counts. Those counts are not a correctness judgement,
+and model tokens are not measured. Reference timings and response sizes are
+reported separately; reference caches expire when the server closes. `--report PATH` writes the JSON report.
+
+The first matrix run used Kuna 1.833 and Ghidra 12.1.4 with JDK 21 on macOS
+arm64. It covered zlib 1.3.2 `minigzip`, coreutils 9.9 `sort` and the sqlite
+3.54.0 shell, built at `-O2` for ELF x86-64, ELF AArch64, Mach-O arm64 and
+Mach-O x86-64, each with symbols and stripped. A separate Linux x86-64 run verified
+the fixture and system zlib 1.2.13 / SQLite 3.40.1 libraries through MCP, including
+cached byte spans and a Ghidra comparison. See the [Linux report](https://github.com/morluto/rea/pull/3854#issuecomment-6185870391)
+for measured scope and limitations. Windows, PE and universal Mach-O remain
+unverified by this lane.
+
 ## DOS Ghidra analysis
 
 `npm run verify:ghidra:dos` requires the supported Ghidra and JDK installation

docs/verification/javascript-analysis-effects-2026-10-15.json

@@ -0,0 +1,249 @@
+{
+  "base_revision": "e598b4656ad90d59ede2d10454a0ac34f3813558",
+  "scope": "Canonical effect metadata only; real static Obsidian reads, no target execution",
+  "baseline_source_sha256": {
+    "src/contracts/toolEffects.ts": "39505b5f1501768515229a37ff67e8a1a512faedfb6669aee7a690a2ac3ac633",
+    "src/javascript/analysis/JavaScriptAnalysisWorker.ts": "49ea4e6344060fae3529ffe6e14bfadc534132067cfa5c370263dc7476375be0",
+    "scripts/verify/javascript/module-references.mjs": "9d5f0b8b35ed2ebb4591f9dc3baea0fc116a0c3fd7d8e5ce30ec476c84671ed1"
+  },
+  "final_source_sha256": {
+    "src/contracts/toolEffects.ts": "feb66f1b71c4a6849d1730227c9c74e4efbb67b4537d75fd41ce9ff615c25753",
+    "src/javascript/analysis/JavaScriptAnalysisWorker.ts": "49ea4e6344060fae3529ffe6e14bfadc534132067cfa5c370263dc7476375be0",
+    "scripts/verify/javascript/module-references.mjs": "9d5f0b8b35ed2ebb4591f9dc3baea0fc116a0c3fd7d8e5ce30ec476c84671ed1",
+    "tests/boundary/mcp/electronMcp.test.ts": "e483bec8512cfeafa7f951c8faf25e1aecd6e6987ea74aead14230501912928d",
+    "tests/boundary/mcp/toolSchemaValidity.test.ts": "ab6d9ba37035a6ff9279b820aa8660c50a3ef9f31d25f838c0ba40929148e89c"
+  },
+  "cohorts": {
+    "baseline": {
+      "metadata": {
+        "tool": "analyze_javascript_application",
+        "advertised_annotations": {
+          "readOnlyHint": false,
+          "destructiveHint": false,
+          "idempotentHint": true,
+          "openWorldHint": false
+        },
+        "session_effects": ["mutatesSession", "idempotent"],
+        "session_annotations": ["idempotent"],
+        "catalog_tool_count": 207
+      },
+      "metadata_probe_resources": {
+        "elapsed_seconds": 10.711,
+        "cpu_seconds": 10.503415,
+        "peak_cgroup_bytes": 842891264,
+        "payload_cleanup_verified": true,
+        "events_at_payload_exit": {
+          "memory.events": {
+            "low": 0,
+            "high": 0,
+            "max": 0,
+            "oom": 0,
+            "oom_kill": 0,
+            "oom_group_kill": 0
+          },
+          "pids.events": {
+            "max": 0
+          }
+        }
+      },
+      "real_workflow": {
+        "artifact": {
+          "path": "/tmp/rea-codemode-experiment-20261015/artifacts/obsidian-1.14.4.asar",
+          "sha256": "146ef8470d8cbb4a6db209bdc19bf2bad13350444186c0fd93c31087b142b92f"
+        },
+        "parent_evidence_id": "ev_73ef06e3b9b944f54c5257f7960279127d8518d2a73cd8618bd045dbe44e6b5a",
+        "samples": [
+          {
+            "round": 0,
+            "mode": "references",
+            "elapsed_ms": 109.19401700000162,
+            "calls": 1,
+            "structured_reply_bytes": 22158,
+            "facts_sha256": "d3be5e91d2ec3fd9a95851cfbbdef9c168bb4c7153f78810b8b235e005401299",
+            "matching_modules": 23,
+            "coverage": {
+              "status": "page",
+              "examined": 23,
+              "total": 23,
+              "next_offset": null,
+              "exhausted": true
+            }
+          }
+        ],
+        "token_costs": {
+          "tokenizer": "cl100k_base",
+          "tiktoken_version": "0.12.0",
+          "costs": {
+            "references": {
+              "selected_catalog": 7977,
+              "full_catalog": 195522,
+              "common_request": 53,
+              "common_summary": 2675,
+              "requests": 102,
+              "structured_replies": 5741,
+              "selected_catalog_task_total": 16548,
+              "full_catalog_task_total": 204093
+            }
+          }
+        },
+        "cli_parity": {
+          "evidence_id": "ev_b3586dfdf7d4f01157f8f2978326aaa7103987110f2df4fa5bf3331ff2898749",
+          "facts_sha256": "d3be5e91d2ec3fd9a95851cfbbdef9c168bb4c7153f78810b8b235e005401299",
+          "exact_cli_mcp_view_parity": true
+        }
+      },
+      "real_workflow_resources": {
+        "elapsed_seconds": 30.47,
+        "cpu_seconds": 29.939807,
+        "peak_cgroup_bytes": 1551282176,
+        "payload_cleanup_verified": true,
+        "events_at_payload_exit": {
+          "memory.events": {
+            "low": 0,
+            "high": 0,
+            "max": 0,
+            "oom": 0,
+            "oom_kill": 0,
+            "oom_group_kill": 0
+          },
+          "pids.events": {
+            "max": 0
+          }
+        }
+      }
+    },
+    "final": {
+      "metadata": {
+        "tool": "analyze_javascript_application",
+        "advertised_annotations": {
+          "readOnlyHint": false,
+          "destructiveHint": false,
+          "idempotentHint": true,
+          "openWorldHint": true
+        },
+        "session_effects": [
+          "mutatesSession",
+          "writesFilesystem",
+          "launchesProcess",
+          "idempotent"
+        ],
+        "session_annotations": ["idempotent", "open_world"],
+        "catalog_tool_count": 207
+      },
+      "metadata_probe_resources": {
+        "elapsed_seconds": 10.909,
+        "cpu_seconds": 10.664997,
+        "peak_cgroup_bytes": 853958656,
+        "payload_cleanup_verified": true,
+        "events_at_payload_exit": {
+          "memory.events": {
+            "low": 0,
+            "high": 0,
+            "max": 0,
+            "oom": 0,
+            "oom_kill": 0,
+            "oom_group_kill": 0
+          },
+          "pids.events": {
+            "max": 0
+          }
+        }
+      },
+      "real_workflow": {
+        "artifact": {
+          "path": "/tmp/rea-codemode-experiment-20261015/artifacts/obsidian-1.14.4.asar",
+          "sha256": "146ef8470d8cbb4a6db209bdc19bf2bad13350444186c0fd93c31087b142b92f"
+        },
+        "parent_evidence_id": "ev_73ef06e3b9b944f54c5257f7960279127d8518d2a73cd8618bd045dbe44e6b5a",
+        "samples": [
+          {
+            "round": 0,
+            "mode": "references",
+            "elapsed_ms": 110.17946600000141,
+            "calls": 1,
+            "structured_reply_bytes": 22158,
+            "facts_sha256": "d3be5e91d2ec3fd9a95851cfbbdef9c168bb4c7153f78810b8b235e005401299",
+            "matching_modules": 23,
+            "coverage": {
+              "status": "page",
+              "examined": 23,
+              "total": 23,
+              "next_offset": null,
+              "exhausted": true
+            }
+          }
+        ],
+        "token_costs": {
+          "tokenizer": "cl100k_base",
+          "tiktoken_version": "0.12.0",
+          "costs": {
+            "references": {
+              "selected_catalog": 7977,
+              "full_catalog": 195522,
+              "common_request": 53,
+              "common_summary": 2675,
+              "requests": 102,
+              "structured_replies": 5741,
+              "selected_catalog_task_total": 16548,
+              "full_catalog_task_total": 204093
+            }
+          }
+        },
+        "cli_parity": {
+          "evidence_id": "ev_b3586dfdf7d4f01157f8f2978326aaa7103987110f2df4fa5bf3331ff2898749",
+          "facts_sha256": "d3be5e91d2ec3fd9a95851cfbbdef9c168bb4c7153f78810b8b235e005401299",
+          "exact_cli_mcp_view_parity": true
+        }
+      },
+      "real_workflow_resources": {
+        "elapsed_seconds": 31.059,
+        "cpu_seconds": 30.663163,
+        "peak_cgroup_bytes": 1584574464,
+        "payload_cleanup_verified": true,
+        "events_at_payload_exit": {
+          "memory.events": {
+            "low": 0,
+            "high": 0,
+            "max": 0,
+            "oom": 0,
+            "oom_kill": 0,
+            "oom_group_kill": 0
+          },
+          "pids.events": {
+            "max": 0
+          }
+        }
+      }
+    }
+  },
+  "conditions": "Separate fresh MCP sessions, uncontrolled warm filesystem/build and shared-host scheduling. One CPU, 8 GiB hard cap, 6 GiB early stop, no swap. Resource counters are at payload exit with the observer alive, not final whole-scope counters; memory includes charged file cache, not summed RSS. Whole real-verifier resources include analysis, export, CLI parity and tokenizer; metadata probe resources are separate. Static BPE uses name/description/inputSchema catalog projections plus requests/structured replies, excludes annotations, metadata-probe calls, rendering/replay/reasoning/final-answer/model usage. No performance improvement or equivalence bound established by one before/after pair.",
+  "regressions": {
+    "baseline": "20 executed: 2 expected metadata failures, 18 passed",
+    "final": "27 passed after the test ownership cleanup across canonical effects and MCP/catalog boundaries",
+    "interim_correction": "26 passed before metadata assertions were split into their own target-free case to satisfy function-size lint"
+  },
+  "selected_input": {
+    "input_path": "/tmp/rea-codemode-experiment-20261015/artifacts/obsidian-1.14.4.asar",
+    "detail": "summary",
+    "source_paths": ["package.json", "main.js"]
+  },
+  "selected_view": {
+    "kind": "javascript",
+    "collection": "modules",
+    "projection": "references",
+    "where": {
+      "path": "main.js",
+      "kind": "javascript-module"
+    }
+  },
+  "observer_sources_sha256": {
+    "resource-run.py": "7728862171415e7dee2c11af2ead2b9a54265fccaf82a7113956d36b29065e33",
+    "resource_payload.py": "6f089e645459eba80c5d73e39c21606c78173a44daf49fabc3b88c4631ce51c6"
+  },
+  "runtime": {
+    "platform": "Linux x64",
+    "node": "24.18.0",
+    "npm": "11.16.0",
+    "tiktoken": "0.12.0"
+  }
+}

docs/verification/javascript-analysis-effects-2026-10-15.md

@@ -0,0 +1,121 @@
+# JavaScript analysis effect metadata verification
+
+Tracks #3867 under #4027. The canonical effect record omitted existing internal
+worker launches and source staging. `CapabilityInventory` and SDK registration
+already consume that owner directly; no adapter override is required. The
+[worker](../../src/javascript/analysis/JavaScriptAnalysisWorker.ts) creates a
+private runtime root, stages `.source` files and launches an owned REA worker.
+These are source-derived facts; the analyzed application code is not executed.
+
+## Executed results
+
+Public stdio MCP before/after:
+
+| Surface                      | Before                         | After                                      |
+| ---------------------------- | ------------------------------ | ------------------------------------------ |
+| `tools/list` `openWorldHint` | `false`                        | `true`                                     |
+| `binary_session` effects     | `mutatesSession`, `idempotent` | also `writesFilesystem`, `launchesProcess` |
+| Session annotation flags     | `idempotent`                   | also `open_world`                          |
+| Advertised tools             | 207                            | 207                                        |
+
+Regression assertions failed on the original contract: **2 failed,
+18 passed**. After correction and separating the target-free metadata case, **27 passed** across canonical effects, public
+Electron/JavaScript MCP and SDK-converted catalog validity. The tests retain the
+non-destructive, idempotent hints and exact session effects; no foreign target
+execution is declared.
+
+The existing real verifier analyzed official Obsidian 1.14.4 with `package.json`
+and `main.js` selected, then read the typed module references and verified exact
+public CLI/MCP parity. Both revisions returned the same parent/view Evidence
+identities and 23-row fact digest. Query replies remained 22,158 bytes and the
+selected-schema task remained 16,548 `cl100k_base` BPE tokens (204,093 with the full
+name/description/inputSchema catalog projection). These are static counts, not
+model billing; annotations, the separate metadata probe, host rendering/replay,
+reasoning and final answers are outside this projection. No hosted agent was run.
+
+| Complete real verifier |        Before |         After |
+| ---------------------- | ------------: | ------------: |
+| Elapsed seconds        |        30.470 |        31.059 |
+| CPU seconds            |     29.939807 |     30.663163 |
+| Peak cgroup bytes      | 1,551,282,176 | 1,584,574,464 |
+
+The scope includes shared analysis, temporary export, CLI parity and tokenizer.
+The metadata-only probe separately used 10.711/10.909 s wall,
+10.503415/10.664997 s CPU and 842,891,264/853,958,656 B peak cgroup memory.
+All scopes used one CPU, an 8 GiB hard cap, 6 GiB early stop and no swap; cleanup
+was verified with no OOM. Memory includes charged file cache, not summed RSS.
+Counters were observed at payload exit while the observer remained alive.
+Fresh MCP sessions do not establish an OS-cold cache. Shared-host scheduling and
+filesystem/build warmness were uncontrolled; one pair establishes neither a
+performance improvement nor an equivalence bound. Linux x64 static ASAR analysis
+was executed; live Electron and other platforms were not exercised locally.
+[Compact records and source hashes](javascript-analysis-effects-2026-10-15.json)
+preserve these distinctions without archiving the downloadable application.
+
+## Reproduce
+
+Use pinned Node/npm, `npm ci`, then `npm run build:cached`. Run the following as
+an ES module from the checkout root (`node --input-type=module < probe.mjs`):
+
+```javascript
+import assert from "node:assert/strict";
+import { Client } from "@modelcontextprotocol/client";
+import { StdioClientTransport } from "@modelcontextprotocol/client/stdio";
+import { toolAvailabilityInventory } from "./dist/contracts/toolOutputSchemaPrimitives.js";
+import { closeVerifierResources } from "./scripts/lib/verifier-cleanup.mjs";
+
+const client = new Client({
+  name: "javascript-effect-verification",
+  version: "1",
+});
+const transport = new StdioClientTransport({
+  command: process.execPath,
+  args: ["scripts/rea.mjs", "mcp"],
+  stderr: "pipe",
+});
+let primaryError;
+try {
+  await client.connect(transport);
+  transport.stderr?.resume();
+  const { tools } = await client.listTools();
+  const tool = tools.find(
+    ({ name }) => name === "analyze_javascript_application",
+  );
+  assert.ok(tool);
+  const response = await client.callTool({
+    name: "binary_session",
+    arguments: {},
+  });
+  assert.notEqual(response.isError, true);
+  const inventory = toolAvailabilityInventory.parse(
+    response.structuredContent?.result?.tool_availability,
+  );
+  const group = inventory.groups.find(({ names }) => names.includes(tool.name));
+  assert.ok(group);
+  console.log(
+    JSON.stringify({
+      tool: tool.name,
+      advertised_annotations: tool.annotations,
+      session_effects: group.effects,
+      session_annotations: group.annotations,
+      catalog_tool_count: tools.length,
+    }),
+  );
+} catch (cause) {
+  primaryError = cause;
+  throw cause;
+} finally {
+  await closeVerifierResources(
+    [() => client.close(), () => transport.close()],
+    primaryError,
+  );
+}
+```
+
+For the real workflow, follow the artifact acquisition/digest instructions in
+[module-reference verification](javascript-module-references-2026-10-15.md).
+Run its existing command with `--mode references --rounds 1 --cli-parity` and the
+same selected source paths and tokenizer. That verifier is unchanged by this
+fix. The preserved 8 GiB cgroup observer and its source hashes are documented in
+the same guide. The machine-readable records separate metadata-probe resources
+from the complete real-workflow resources.

docs/verification/javascript-literal-byte-budget-2026-10-15.json

@@ -0,0 +1,547 @@
+{
+  "base_revision": "e9a71efa31d6c3675b67938b8a79fa4ddf01604c",
+  "scope": "Semantic per-value string-byte normalization; real static shipped-application control, no hosted-model performance claim",
+  "runtime": {
+    "platform": "Linux x64",
+    "node": "24.18.0",
+    "npm": "11.16.0",
+    "tiktoken": "0.12.0"
+  },
+  "baseline_source_sha256": {
+    "src/domain/javascript/javascriptSemanticValues.ts": "df3fc30b5ba91901a85fe56f200355930da32d054bb026a747e3414af233b6b5",
+    "src/domain/javascript/javascriptSemanticPrimitives.ts": "c12b29f0faf4b6511777cba7ed8ac007c6d6170d657f01e43e194feacb3e0601",
+    "src/domain/javascript/javascriptSemanticResourceLimits.ts": "0203d207e0d6bb8aaa17746090f008876a11653afd660fce3dc44f3fda646a6c",
+    "scripts/verify/javascript/module-references.mjs": "9d5f0b8b35ed2ebb4591f9dc3baea0fc116a0c3fd7d8e5ce30ec476c84671ed1"
+  },
+  "final_source_sha256": {
+    "scripts/verify/javascript/module-references.mjs": "9d5f0b8b35ed2ebb4591f9dc3baea0fc116a0c3fd7d8e5ce30ec476c84671ed1",
+    "src/application/javascript/JavaScriptSemanticGraphDataProjection.ts": "844d4639401a9f050ce42c80192572a6d0d74fe4f81b37e93a2c20aaca9fb9a6",
+    "src/domain/javascript/javascriptSemanticAnalysis.ts": "a3f802ca3446c2b5376cc58b19d818eff318e6775bd47752793c3f649994f8a2",
+    "src/domain/javascript/javascriptSemanticAnalysis.unions.test.ts": "2e78717d30e637b5fc5bab6d0eff063f7a62e0199d33697c1cdfaf8317baa698",
+    "src/domain/javascript/javascriptSemanticDataEffectHelpers.ts": "8f9cf1a36f05b03dd816eaf9a6cdba0160d34ad7d17a961206e1bc32444d2ccc",
+    "src/domain/javascript/javascriptSemanticDataEffects.ts": "e69408f2f5910a0107fd5d0cae0ff60ed706448857bc8e535c37cac1a0cd4d37",
+    "src/domain/javascript/javascriptSemanticIr.ts": "68dad360d0a9e6bd72108b2717cae756b84ca1efb48455248ded2ff699d2c113",
+    "src/domain/javascript/javascriptSemanticPrimitives.ts": "899eeb6ccdf666f504f8b722327599997c924c8e4fb13a1cbd13edaf08c96640",
+    "src/domain/javascript/javascriptSemanticResourceLimits.ts": "0993a397f2a2a48c2b6c35494e940b3fce5c2c9032cfe33c7cf0401128c79dde",
+    "src/domain/javascript/javascriptSemanticState.ts": "bfcface5dcda22594f47ed390efa15f9140fe41cb2d5995896e52dd0ee31b978",
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+        "selected_catalog": 7977,
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+        "common_summary": 2675,
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+  "conditions": "First query is after shared artifact analysis; subsequent queries share one MCP session. Legacy item reads are serial; a concurrent legacy baseline is unmeasured. Filesystem/build warmness uncontrolled. Token costs count one post-change catalog, preparation request/summary and each request/structured reply once; client rendering, replay, reasoning, final answer and model latency are unmeasured. Preparation and parity/tokenization overhead are outside per-query elapsed times; external family-resource receipts include the complete verifier and children. Before/after used separate fresh MCP sessions. CPU/memory includes analysis, query arms, export, CLI parity and tokenization; cgroup memory includes file cache, not summed RSS. Counters are at payload exit while observer lives, not final scope counters. One before/after control establishes no speedup or equivalence bound. Catalog BPE projection excludes annotations/output schemas.",
+  "resource_policy": {
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+    "early_stop_bytes": 6442450944,
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+    "original_main": "Quoted/template oversized literals failed through public CLI/MCP; addition/small controls passed. Corrected domain boundary reproduced 2 failures/16 passes.",
+    "review_head": "8 failed/25 passed before fixes for projection tags, encountered-but-discarded limits and bare quoted/template defaults; includes exact null default control.",
+    "interim_review_fix": "65/66 focused passed; old doubling-chain expectation omitted a genuine expression-depth limit now observed. Adjusted that assertion to preserve the byte-limit requirement while allowing other observed classes.",
+    "final_focused": "66 passed across five files on the restored 38d263a runtime. Final corrected public selection passed 7/7 in two files: the six literal/default/member cases plus the augmented original large-endpoint acceptance. 67 distinct focused cases across invocations; not a single 67-case invocation.",
+    "final_semantic_suite": "932 passed in 36 files on 38d263a. Final production src tree (including these domain tests) verified byte-identical to that revision; no repeated semantic run claimed.",
+    "arithmetic": "Computed 174762*6+2=1048574 and 174763*6+2=1048580. Corrected the erroneous published 1048578 total.",
+    "final_grouped_domain": "27 passed after grouping observations/defaults/allocation within function-size rules; no scenarios removed.",
+    "endpoint_contract_correction": "Restored exact endpoint lookup identities rather than shrinking the existing large-endpoint fixture. Added the identical oversized string as an exported primitive in that acceptance workflow: literal normalization must report its bound while full endpoint lookup/feature trace/semantic trace/version comparison continue to work. Production src tree restored byte-identical to 38d263a; 932 semantic tests from that state remain applicable. Final corrected public tests/gates recorded after execution.",
+    "final_corrected_gates": "Full static gate and docs gate (5 consistency tests) passed after endpoint identity restoration and strengthened unchanged-large-input acceptance. Production src remains byte-identical to 38d263a; final public 7/7 and fresh real control passed."
+  },
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+      "revision": "40b9d3c5b9cbeae7661d8e351e1b5ef6e5338931",
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+        "src/domain/javascript/javascriptSemanticPrimitives.ts": "899eeb6ccdf666f504f8b722327599997c924c8e4fb13a1cbd13edaf08c96640",
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+        "tests/boundary/mcp/javascriptLiteralPayload.test.ts": "03618272c605f8877ed171ab39e037e4d80eac72b7478421640076f739adfb50",
+        "scripts/verify/javascript/module-references.mjs": "9d5f0b8b35ed2ebb4591f9dc3baea0fc116a0c3fd7d8e5ce30ec476c84671ed1"
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+        "baseline_public": "Quoted and cooked-template cases retained 200000-unit normalized literals and failed; addition and small exact controls passed. Aggregate-capacity test passed.",
+        "baseline_domain_corrected": "2 over-bound failures, 16 passed. Initial combined-run domain assertions had incorrectly required an empty optional resourceLimits array; corrected before using the domain reproduction as evidence.",
+        "fixed_focused": "55 passed across five files.",
+        "semantic_suite": "923 passed across 36 files.",
+        "capacity_after_fixture_cleanup": "1 passed; all 16 bounded values, aggregate size >= original, typed identities and retained tracing preserved.",
+        "interim_static_failure": "Typecheck rejected resume() on the new test SDK stderr Stream declaration. Switched to its declared data event, matching existing typed tests; analyzer source unchanged.",
+        "public_boundary_after_stream_type_fix": "4 passed across actual CLI and stdio MCP; analyzer source unchanged."
+      }
+    },
+    {
+      "stage": "Projection/default correction; final review subsequently found unnormalized request endpoints",
+      "revision": "38d263a369e7853ccfae1c8e0a3bd387f920c7cf",
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+        "src/domain/javascript/javascriptSemanticValues.ts": "a4ba51cc60fff38ef11fd5af35a2e1ad753cdb2dea9d44895f91d89320c5ddeb",
+        "tests/boundary/mcp/javascriptLiteralBudget.test.ts": "070106115b482269794799e448bd20b8e02df1f511f4ceb2b8fa75612c7f78e4",
+        "tests/boundary/mcp/javascriptLiteralPayload.test.ts": "03618272c605f8877ed171ab39e037e4d80eac72b7478421640076f739adfb50"
+      },
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+      },
+      "validation": {
+        "original_main": "Quoted/template oversized literals failed through public CLI/MCP; addition/small controls passed. Corrected domain boundary reproduced 2 failures/16 passes.",
+        "review_head": "8 failed/25 passed before fixes for projection tags, encountered-but-discarded limits and bare quoted/template defaults; includes exact null default control.",
+        "interim_review_fix": "65/66 focused passed; old doubling-chain expectation omitted a genuine expression-depth limit now observed. Adjusted that assertion to preserve the byte-limit requirement while allowing other observed classes.",
+        "final_focused": "66 passed in five files.",
+        "final_semantic_suite": "932 passed in 36 files.",
+        "arithmetic": "Computed 174762*6+2=1048574 and 174763*6+2=1048580. Corrected the erroneous published 1048578 total.",
+        "final_grouped_domain": "27 passed after grouping observations/defaults/allocation within function-size rules; no scenarios removed.",
+        "endpoint_review_baseline": "Production at 38d263a: 7 failed/14 passed across 13 new domain and 8 CLI/MCP cases before endpoint normalization. The later public linked-response case was not in this baseline run. Regression tests were uncommitted; final formatted test hashes are preserved, not claimed as the baseline test bytes.",
+        "endpoint_selection_attempt": "First six-file selection exited before execution because a signed-zero test filename was mistyped; corrected the exact path. No test result claimed for that attempt."
+      }
+    },
+    {
+      "stage": "Rejected endpoint normalization: violated existing full-endpoint lookup/trace contract; reverted after CI acceptance failure",
+      "revision": "580887209c4fceda432eac4083fac82a0dd78f15",
+      "source_sha256": {
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+        "src/application/javascript/JavaScriptSemanticGraphDataProjection.ts": "a648f97e631985edcb5259ff4f1fdf0332dca18b8c10b57e050e36a785c1c524",
+        "src/domain/javascript/javascriptSemanticAnalysis.requestBudget.test.ts": "8e84ffa70d834f5589d04118f0aaf33b0383b15ea97545ff69c66a74473aca73",
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+        "src/domain/javascript/javascriptSemanticState.ts": "bfcface5dcda22594f47ed390efa15f9140fe41cb2d5995896e52dd0ee31b978",
+        "src/domain/javascript/javascriptSemanticValues.ts": "a4ba51cc60fff38ef11fd5af35a2e1ad753cdb2dea9d44895f91d89320c5ddeb",
+        "tests/boundary/mcp/javascriptLiteralBudget.test.ts": "61319ea954de7f256841f43ca9355a1706ce8e93d30f2a8ba851d5e717bd19e7",
+        "tests/boundary/mcp/javascriptLiteralPayload.test.ts": "03618272c605f8877ed171ab39e037e4d80eac72b7478421640076f739adfb50"
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+      "validation": {
+        "original_main": "Quoted/template oversized literals failed through public CLI/MCP; addition/small controls passed. Corrected domain boundary reproduced 2 failures/16 passes.",
+        "review_head": "8 failed/25 passed before fixes for projection tags, encountered-but-discarded limits and bare quoted/template defaults; includes exact null default control.",
+        "interim_review_fix": "65/66 focused passed; old doubling-chain expectation omitted a genuine expression-depth limit now observed. Adjusted that assertion to preserve the byte-limit requirement while allowing other observed classes.",
+        "final_focused": "81 passed in six files; the same CLI/MCP file then passed 9/9 after adding a linked-response case. That follow-up replaces its earlier 8-case coverage; 82 distinct cases across the final six-file selection, not one 82-case invocation.",
+        "final_semantic_suite": "945 passed in 37 files, overlapping focused domain coverage.",
+        "arithmetic": "Computed 174762*6+2=1048574 and 174763*6+2=1048580. Corrected the erroneous published 1048578 total.",
+        "final_grouped_domain": "27 passed after grouping observations/defaults/allocation within function-size rules; no scenarios removed.",
+        "endpoint_review_baseline": "Production at 38d263a: 7 failed/14 passed across 13 new domain and 8 CLI/MCP cases before endpoint normalization. The later public linked-response case was not in this baseline run. Regression tests were uncommitted; final formatted test hashes are preserved, not claimed as the baseline test bytes.",
+        "endpoint_selection_attempt": "First six-file selection exited before execution because a signed-zero test filename was mistyped; corrected the exact path. No test result claimed for that attempt.",
+        "endpoint_typecheck_attempt": "Full static gate found the inferred optional dataField in the public test computed key. Replaced the in-property check with an explicit bare === true discriminant; scenario inputs and runtime implementation unchanged. Corrected static/public checks recorded separately.",
+        "final_gates": "Full static gate passed after the explicit test discriminant; final public file passed 9/9 again, then docs gate passed including 5 consistency tests. Runtime implementation unchanged after the 945-test semantic suite and real control."
+      },
+      "ci_failure": {
+        "run_id": 38758262643,
+        "job_id": 116503076738,
+        "test": "tests/acceptance/applications/javascriptEndpointPayload.test.ts",
+        "result": "1 failed/1573 passed/19 skipped; request endpoint no longer matched its complete source value. Other local tests and real Obsidian control passed but did not establish this compatibility contract.",
+        "aggregate_result": "Merged source/built report: 1 failed/15625 passed/138 skipped. Portable tests and CI required failed as aggregates of the same endpoint assertion; no separate additional failed test."
+      }
+    }
+  ],
+  "review_baseline_revision": "40b9d3c5b9cbeae7661d8e351e1b5ef6e5338931",
+  "review_baseline_source_sha256": {
+    "scripts/verify/javascript/module-references.mjs": "9d5f0b8b35ed2ebb4591f9dc3baea0fc116a0c3fd7d8e5ce30ec476c84671ed1",
+    "src/application/javascript/JavaScriptSemanticGraphDataProjection.ts": "ee541e634264363822bf4ce05c42c72272029c7e8da72bbeed643ad1341d0756",
+    "src/domain/javascript/javascriptSemanticAnalysis.ts": "a1cf791a61ee4742c351c006b69b64eba6bef3068f7a8450ed8f9366bfe4ff88",
+    "src/domain/javascript/javascriptSemanticAnalysis.unions.test.ts": "747d893d6ddd91cf24d3b62b7eb50e0af9b1715ab355bbfc2e10ed0dc171ec17",
+    "src/domain/javascript/javascriptSemanticDataEffectHelpers.ts": "5ee7af18dd847726d8fe1828ea25f386ff9ef317d996a3f7969253bf73973cfa",
+    "src/domain/javascript/javascriptSemanticDataEffects.ts": "4c62462016246bc7198294a74a60e87598fc009c53f1601abc2d4662d41b5bd1",
+    "src/domain/javascript/javascriptSemanticIr.ts": "14955cb4b7912ed6a4f26f804a2480f841dcb6084dbddd15856375fa62cdcfa1",
+    "src/domain/javascript/javascriptSemanticPrimitives.ts": "899eeb6ccdf666f504f8b722327599997c924c8e4fb13a1cbd13edaf08c96640",
+    "src/domain/javascript/javascriptSemanticResourceLimits.ts": "0203d207e0d6bb8aaa17746090f008876a11653afd660fce3dc44f3fda646a6c",
+    "src/domain/javascript/javascriptSemanticState.ts": "d94c5a88bb105284fab192406a8c88860d59f80c93394ed3ee7264969df254a6",
+    "src/domain/javascript/javascriptSemanticValues.ts": "2debbb4f32d7d189819f2413f0f7d05b9bdcf497451a1c578475e3f2ec6c8554",
+    "tests/boundary/mcp/javascriptLiteralBudget.test.ts": "46ceb5a169de3eec3a335b05ef4aa7b1b341a5ac06ad325bd191e862c5b6be70",
+    "tests/boundary/mcp/javascriptLiteralPayload.test.ts": "03618272c605f8877ed171ab39e037e4d80eac72b7478421640076f739adfb50"
+  },
+  "implementation": "Per-analysis state records encountered resource classifications at expression/default normalization; final coverage consumes those facts. Slot projection preserves tagged unknown values. Removed retained-value recursive coverage scan and duplicate raw default reader. Defaults retain optional valueResourceLimit and graph value_resource_limit plus an anchored resource-limit unknown; known null/false/0/empty remain exact. Endpoint identities intentionally remain exact lookup values, outside the normalized primitive lattice; rejected endpoint normalization and its CI failure are preserved separately.",
+  "restored_production_revision": "38d263a369e7853ccfae1c8e0a3bd387f920c7cf",
+  "final_corrected_resource_receipts": {
+    "public_7": {
+      "elapsed_seconds": 43.621,
+      "cpu_seconds": 43.097453,
+      "peak_cgroup_bytes": 1520324608,
+      "payload_cleanup_verified": true,
+      "events_at_payload_exit": {
+        "memory.events": {
+          "low": 0,
+          "high": 0,
+          "max": 0,
+          "oom": 0,
+          "oom_kill": 0,
+          "oom_group_kill": 0
+        },
+        "pids.events": {
+          "max": 0
+        }
+      }
+    },
+    "static_and_docs": {
+      "elapsed_seconds": 111.403,
+      "cpu_seconds": 110.830839,
+      "peak_cgroup_bytes": 4268244992,
+      "payload_cleanup_verified": true,
+      "events_at_payload_exit": {
+        "memory.events": {
+          "low": 0,
+          "high": 0,
+          "max": 0,
+          "oom": 0,
+          "oom_kill": 0,
+          "oom_group_kill": 0
+        },
+        "pids.events": {
+          "max": 0
+        }
+      }
+    }
+  }
+}

docs/verification/javascript-literal-byte-budget-2026-10-15.md

@@ -0,0 +1,86 @@
+# Semantic literal byte-budget verification
+
+Tracks #3933 under #4027. All normalized semantic literals and configuration
+defaults use the primitive owner. Its singleton path validates strings/nonfinite
+numbers/negative zero without a Set, sorting or canonical-key serialization.
+Each source analysis owns a bounded set of encountered limit classifications;
+coverage consumes these observations after evaluation. This replaces a recursive
+scan that only saw retained binding/return values. No persistent cache is added.
+
+## Correctness and coverage
+
+Public CLI and actual stdio MCP cases cover quoted strings, cooked templates,
+equivalent concatenation, member receivers, a configuration-only expression
+statement and a small exact control. Direct/default oversized values become
+`resource-limit` unknowns with partial application coverage and
+`javascript_semantic_primitive_bytes = 1048576`. Defaults carry
+`value_resource_limit` inline and an unknown anchored to their config node.
+Known null/false/zero/empty defaults remain exact. Original source/digests and
+CLI/MCP identity parity are preserved.
+
+Member and destructuring projections use the shared slot owner's tagged value.
+An encountered limit stays visible even when a subsequent projection selects a
+healthy sibling: the selected value remains exactly `7`, while file coverage is
+partial. This avoids inferring completeness from the final retained values alone.
+The duplicate raw default reader and superseded retained-value scan are removed.
+
+Boundary controls admit 174,762 UTF-16 units (1,048,574 estimated JSON bytes)
+and reject 174,763 (1,048,580 bytes). Actual arithmetic corrected the earlier
+published 1,048,578 total; the unit-count boundary assertions were already correct.
+The estimate counts six bytes per unit plus two quotes. It does not establish
+actual ASCII JSON size above 1 MiB or an observed OOM.
+
+The initial main baseline reproduced both public literal failures, with addition
+and small controls passing. A mistaken optional-limit-array control was corrected
+before the separate domain reproduction (2 failed/16 passed). Review head
+`40b9d3c5` then reproduced the additional projection/default gaps (8 failed,
+25 passed). The first review correction passed 65/66 focused tests; a doubling
+chain now truthfully retains an additional encountered expression-depth limit,
+so its byte-growth assertion was updated to allow other recorded limits.
+Prior validation on the restored runtime: **66 focused tests** in five files and **932 semantic tests**
+in 36 files, with overlapping domain coverage. The large-wire fixture retains
+16 individually admitted values and at least the former aggregate UTF-16 payload,
+plus complete CLI/MCP delivery, typed identities, empty strings and retained
+tracing. Inputs regenerate from the tests.
+
+## Endpoint identity compatibility
+
+An attempted endpoint normalization at `5808872` passed its new local cases and real Obsidian control, but failed the existing CI endpoint-payload acceptance workflow (1 failed/1,573 passed/19 skipped in that shard). It violated the established full endpoint lookup/trace contract. This extension was reverted; endpoint values are lookup identities, outside the normalized primitive lattice. The original large endpoint is preserved. Corrected public validation passed **7/7** across two files; this adds one acceptance workflow to the previous 66-case focused selection (**67 distinct cases**, not one 67-case invocation). Its acceptance workflow now also normalizes that identical string as an exported primitive, requiring the typed value bound while endpoint lookup, both trace workflows and version comparison remain usable. Prior measurements and failed attempts remain in the JSON record. Production source is restored byte-identical to `38d263a`; the 932-test semantic run belongs to that state. Final full static and documentation gates (five consistency tests) passed after the compatibility correction.
+
+## Real application control and costs
+
+Official Obsidian 1.14.4 ASAR, selected `package.json` and `main.js`. Follow the
+acquisition/digest and existing verifier command in
+[module-reference verification](javascript-module-references-2026-10-15.md).
+Use three alternating-order query pairs with CLI parity on each revision.
+Application code is not executed.
+
+The final correction retains the exact baseline full parent/view Evidence IDs,
+23-row fact digest, source coverage and unknowns. Static `cl100k_base` task costs
+remain 16,548 with selected name/description/inputSchema contracts, or 204,093
+with the full catalog projection, for the reference workflow. Serial legacy
+reads also keep their original costs. The query projection improvement belongs
+to #4097; these are controls for semantic normalization and coverage.
+
+| Complete real verifier |        Before | Final correction |
+| ---------------------- | ------------: | ---------------: |
+| Elapsed seconds        |        33.394 |           32.949 |
+| CPU seconds            |     33.016802 |        32.559187 |
+| Peak cgroup bytes      | 1,979,863,040 |    1,880,096,768 |
+
+Includes initial analysis, both query arms, export, CLI parity and tokenizer.
+One CPU, 8 GiB hard cap, 6 GiB early stop, no swap; cleanup verified and no OOM.
+Memory includes charged file cache, not summed RSS. Counters are at payload exit
+while the observer remains alive. Fresh MCP sessions do not establish OS-cold
+cache conditions. Shared-host scheduling and filesystem/build warmness were
+uncontrolled. This one before/after control establishes neither a speedup nor
+an equivalence bound. Static BPE excludes annotations/output schemas, client
+rendering/replay, reasoning and final answers; no hosted agent was run. Linux
+static ASAR analysis was exercised, not live Electron or other platforms.
+
+[Compact records, samples, source hashes and prior attempts](javascript-literal-byte-budget-2026-10-15.json)
+preserve the initial incomplete correction separately from the final measurements.
+No downloadable application or complete bundle is archived. Reproduce boundary
+outcomes through the listed public tests and reuse the existing real verifier
+and preserved 8 GiB observer linked above. Observer hashes and result-affecting
+touched source hashes are pinned in the records.

docs/verification/javascript-module-references-2026-10-15.json

@@ -0,0 +1,691 @@
+{
+  "base_revision": "c9f9b83c6f5878f1d5b102ab206a2ce214749258",
+  "source_sha256": {
+    "scripts/verify/javascript/module-references.mjs": "9d5f0b8b35ed2ebb4591f9dc3baea0fc116a0c3fd7d8e5ce30ec476c84671ed1",
+    "src/contracts/analysisViewToolContracts.ts": "f7c64b3472e7ec1090f9d47ede864b8c9630d506d896454a800747f2c90a8960",
+    "src/domain/analysisView/analysisView.ts": "854b03988791c19642b01d17813b379b51d8edc10d2190a3c236c9a1b2feb365",
+    "src/domain/analysisView/javascriptApplicationView.ts": "f2c41ad15fdc9f891412c9161a832b60baf3dae55e3c4d60159098d07f7d1ef1",
+    "src/domain/analysisView/javascriptModuleReferences.ts": "34c7a7ff466e9c49d43f1b11b72f878041de61a1bc09086ec190a5833b454806",
+    "scripts/fixtures/tokenizer-family-wrapper.py": "2e9b7092ee539ae1c6a477492f05bb6007d4612dadfff9b90051d621de43049b"
+  },
+  "verification": {
+    "scope": "Completed module-fact reads from identical retained Evidence; no hosted-model performance claim",
+    "artifact": {
+      "path": "/tmp/rea-codemode-experiment-20261015/artifacts/obsidian-1.14.4.asar",
+      "sha256": "146ef8470d8cbb4a6db209bdc19bf2bad13350444186c0fd93c31087b142b92f"
+    },
+    "parent_evidence_id": "ev_73ef06e3b9b944f54c5257f7960279127d8518d2a73cd8618bd045dbe44e6b5a",
+    "source_selection": {
+      "requested_paths": ["package.json", "main.js"],
+      "unselected_files": 36
+    },
+    "source_coverage": {
+      "application": {
+        "status": "partial",
+        "truncated": false,
+        "omitted_count": null,
+        "limits": []
+      },
+      "semantic": {
+        "status": "partial",
+        "truncated": false,
+        "omitted_nodes": null,
+        "omitted_relations": null,
+        "limits": [],
+        "families": [
+          {
+            "family": "boundary",
+            "status": "partial",
+            "retained_relations": 14,
+            "omitted_relations": null,
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+          },
+          {
+            "family": "call-flow",
+            "status": "partial",
+            "retained_relations": 845,
+            "omitted_relations": null,
+            "unknown_count": 1278
+          },
+          {
+            "family": "child-process",
+            "status": "partial",
+            "retained_relations": 0,
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+          {
+            "family": "closure",
+            "status": "partial",
+            "retained_relations": 1187,
+            "omitted_relations": null,
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+          },
+          {
+            "family": "configuration",
+            "status": "partial",
+            "retained_relations": 0,
+            "omitted_relations": null,
+            "unknown_count": 31
+          },
+          {
+            "family": "data-flow",
+            "status": "partial",
+            "retained_relations": 9388,
+            "omitted_relations": null,
+            "unknown_count": 1135
+          },
+          {
+            "family": "event",
+            "status": "partial",
+            "retained_relations": 127,
+            "omitted_relations": null,
+            "unknown_count": 89
+          },
+          {
+            "family": "object-flow",
+            "status": "partial",
+            "retained_relations": 1462,
+            "omitted_relations": null,
+            "unknown_count": 2292
+          },
+          {
+            "family": "promise-ownership",
+            "status": "partial",
+            "retained_relations": 80,
+            "omitted_relations": null,
+            "unknown_count": 98
+          },
+          {
+            "family": "request",
+            "status": "partial",
+            "retained_relations": 0,
+            "omitted_relations": null,
+            "unknown_count": 31
+          },
+          {
+            "family": "resource-lifecycle",
+            "status": "partial",
+            "retained_relations": 4,
+            "omitted_relations": null,
+            "unknown_count": 31
+          },
+          {
+            "family": "timer",
+            "status": "partial",
+            "retained_relations": 8,
+            "omitted_relations": null,
+            "unknown_count": 31
+          }
+        ]
+      },
+      "application_unknowns": 36,
+      "semantic_unknowns": 5109
+    },
+    "where": {
+      "path": "main.js",
+      "kind": "javascript-module"
+    },
+    "preparation_ms": 20978.249922,
+    "samples": [
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+        "matching_modules": 23,
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+          "examined": 55,
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+          "next_offset": null,
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+        }
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+      {
+        "round": 0,
+        "mode": "references",
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+        "facts_sha256": "d3be5e91d2ec3fd9a95851cfbbdef9c168bb4c7153f78810b8b235e005401299",
+        "matching_modules": 23,
+        "coverage": {
+          "status": "page",
+          "examined": 23,
+          "total": 23,
+          "next_offset": null,
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+        }
+      },
+      {
+        "round": 1,
+        "mode": "references",
+        "elapsed_ms": 12.951290000000881,
+        "calls": 1,
+        "structured_reply_bytes": 22158,
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+        "matching_modules": 23,
+        "coverage": {
+          "status": "page",
+          "examined": 23,
+          "total": 23,
+          "next_offset": null,
+          "exhausted": true
+        }
+      },
+      {
+        "round": 1,
+        "mode": "legacy",
+        "elapsed_ms": 232.7533779999976,
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+        "structured_reply_bytes": 325201,
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+        "matching_modules": 23,
+        "coverage": {
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+          "examined": 55,
+          "total": 55,
+          "next_offset": null,
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+        }
+      },
+      {
+        "round": 2,
+        "mode": "legacy",
+        "elapsed_ms": 235.16672899999685,
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+          "next_offset": null,
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+        }
+      }
+    ],
+    "token_costs": {
+      "tokenizer": "cl100k_base",
+      "tiktoken_version": "0.12.0",
+      "costs": {
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+          "full_catalog": 195446,
+          "common_request": 53,
+          "common_summary": 2675,
+          "requests": 2836,
+          "structured_replies": 71761,
+          "selected_catalog_task_total": 85302,
+          "full_catalog_task_total": 272771
+        },
+        "references": {
+          "selected_catalog": 7977,
+          "full_catalog": 195446,
+          "common_request": 53,
+          "common_summary": 2675,
+          "requests": 102,
+          "structured_replies": 5741,
+          "selected_catalog_task_total": 16548,
+          "full_catalog_task_total": 204017
+        }
+      }
+    },
+    "cli_parity": {
+      "evidence_id": "ev_b3586dfdf7d4f01157f8f2978326aaa7103987110f2df4fa5bf3331ff2898749",
+      "facts_sha256": "d3be5e91d2ec3fd9a95851cfbbdef9c168bb4c7153f78810b8b235e005401299",
+      "exact_cli_mcp_view_parity": true
+    },
+    "conditions": "First query is after shared artifact analysis; subsequent queries share one MCP session. Legacy item reads are serial; a concurrent legacy baseline is unmeasured. Filesystem/build warmness uncontrolled. Token costs count one post-change catalog, preparation request/summary and each request/structured reply once; client rendering, replay, reasoning, final answer and model latency are unmeasured. Preparation and parity/tokenization overhead are outside per-query elapsed times; external family-resource receipts include the complete verifier and children."
+  },
+  "resources": {
+    "scope": "Complete verifier, MCP/analysis descendants, temporary export, CLI parity and tokenizer; cgroup memory includes charged file cache and is not summed RSS",
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+    "payload_exit_code": 0,
+    "payload_cleanup_verified": true,
+    "events_at_payload_exit": {
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+        "high": 0,
+        "max": 0,
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+        "oom_kill": 0,
+        "oom_group_kill": 0
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+    }
+  },
+  "prior_attempts": [
+    {
+      "scope": "Initial verifier incorrectly requested full MCP delivery; completed analysis exceeded existing response admission",
+      "elapsed_seconds": 21.971,
+      "cpu_seconds": 21.78546,
+      "peak_cgroup_bytes": 1080860672,
+      "outcome": "resource_constraint transport; verifier corrected to summary-first; no performance credit"
+    },
+    {
+      "scope": "Interim successful parity run before eliminating verifier assertion serialization and counting the bootstrap request",
+      "elapsed_seconds": 31.335,
+      "cpu_seconds": 31.07044,
+      "peak_cgroup_bytes": 1652293632,
+      "outcome": "parity passed; superseded measurement, not pooled with final samples"
+    },
+    {
+      "scope": "Successful three-pair probe before adding the shared analyze_javascript_application schema to selected-catalog accounting",
+      "preparation_ms": 18317.110148,
+      "samples": [
+        {
+          "round": 0,
+          "mode": "legacy",
+          "elapsed_ms": 313.59318599999824,
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+          "coverage": {
+            "status": "page",
+            "examined": 55,
+            "total": 55,
+            "next_offset": null,
+            "exhausted": true
+          }
+        },
+        {
+          "round": 0,
+          "mode": "references",
+          "elapsed_ms": 13.595478999999614,
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+            "next_offset": null,
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+          }
+        },
+        {
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+          "mode": "references",
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+            "next_offset": null,
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+          }
+        },
+        {
+          "round": 1,
+          "mode": "legacy",
+          "elapsed_ms": 206.19418099999893,
+          "calls": 24,
+          "structured_reply_bytes": 325201,
+          "facts_sha256": "d3be5e91d2ec3fd9a95851cfbbdef9c168bb4c7153f78810b8b235e005401299",
+          "matching_modules": 23,
+          "coverage": {
+            "status": "page",
+            "examined": 55,
+            "total": 55,
+            "next_offset": null,
+            "exhausted": true
+          }
+        },
+        {
+          "round": 2,
+          "mode": "legacy",
+          "elapsed_ms": 242.2037199999977,
+          "calls": 24,
+          "structured_reply_bytes": 325201,
+          "facts_sha256": "d3be5e91d2ec3fd9a95851cfbbdef9c168bb4c7153f78810b8b235e005401299",
+          "matching_modules": 23,
+          "coverage": {
+            "status": "page",
+            "examined": 55,
+            "total": 55,
+            "next_offset": null,
+            "exhausted": true
+          }
+        },
+        {
+          "round": 2,
+          "mode": "references",
+          "elapsed_ms": 13.734700000000885,
+          "calls": 1,
+          "structured_reply_bytes": 22158,
+          "facts_sha256": "d3be5e91d2ec3fd9a95851cfbbdef9c168bb4c7153f78810b8b235e005401299",
+          "matching_modules": 23,
+          "coverage": {
+            "status": "page",
+            "examined": 23,
+            "total": 23,
+            "next_offset": null,
+            "exhausted": true
+          }
+        }
+      ],
+      "elapsed_seconds": 31.037,
+      "cpu_seconds": 30.786998,
+      "peak_cgroup_bytes": 1886543872,
+      "outcome": "Facts and CLI/MCP parity passed. Selected-catalog totals omitted the common analysis-tool schema; superseded, not pooled. Shared-host timing differed substantially from the final run."
+    },
+    {
+      "scope": "Completed three-pair probe with full token accounting before the review-added tokenizer deadline",
+      "preparation_ms": 66696.731143,
+      "samples": [
+        {
+          "round": 0,
+          "mode": "legacy",
+          "elapsed_ms": 1114.080965000001,
+          "calls": 24,
+          "structured_reply_bytes": 325201,
+          "facts_sha256": "d3be5e91d2ec3fd9a95851cfbbdef9c168bb4c7153f78810b8b235e005401299",
+          "matching_modules": 23,
+          "coverage": {
+            "status": "page",
+            "examined": 55,
+            "total": 55,
+            "next_offset": null,
+            "exhausted": true
+          }
+        },
+        {
+          "round": 0,
+          "mode": "references",
+          "elapsed_ms": 46.572758999987855,
+          "calls": 1,
+          "structured_reply_bytes": 22158,
+          "facts_sha256": "d3be5e91d2ec3fd9a95851cfbbdef9c168bb4c7153f78810b8b235e005401299",
+          "matching_modules": 23,
+          "coverage": {
+            "status": "page",
+            "examined": 23,
+            "total": 23,
+            "next_offset": null,
+            "exhausted": true
+          }
+        },
+        {
+          "round": 1,
+          "mode": "references",
+          "elapsed_ms": 37.09324900001229,
+          "calls": 1,
+          "structured_reply_bytes": 22158,
+          "facts_sha256": "d3be5e91d2ec3fd9a95851cfbbdef9c168bb4c7153f78810b8b235e005401299",
+          "matching_modules": 23,
+          "coverage": {
+            "status": "page",
+            "examined": 23,
+            "total": 23,
+            "next_offset": null,
+            "exhausted": true
+          }
+        },
+        {
+          "round": 1,
+          "mode": "legacy",
+          "elapsed_ms": 675.7124039999908,
+          "calls": 24,
+          "structured_reply_bytes": 325201,
+          "facts_sha256": "d3be5e91d2ec3fd9a95851cfbbdef9c168bb4c7153f78810b8b235e005401299",
+          "matching_modules": 23,
+          "coverage": {
+            "status": "page",
+            "examined": 55,
+            "total": 55,
+            "next_offset": null,
+            "exhausted": true
+          }
+        },
+        {
+          "round": 2,
+          "mode": "legacy",
+          "elapsed_ms": 777.2660329999926,
+          "calls": 24,
+          "structured_reply_bytes": 325201,
+          "facts_sha256": "d3be5e91d2ec3fd9a95851cfbbdef9c168bb4c7153f78810b8b235e005401299",
+          "matching_modules": 23,
+          "coverage": {
+            "status": "page",
+            "examined": 55,
+            "total": 55,
+            "next_offset": null,
+            "exhausted": true
+          }
+        },
+        {
+          "round": 2,
+          "mode": "references",
+          "elapsed_ms": 36.31178899999941,
+          "calls": 1,
+          "structured_reply_bytes": 22158,
+          "facts_sha256": "d3be5e91d2ec3fd9a95851cfbbdef9c168bb4c7153f78810b8b235e005401299",
+          "matching_modules": 23,
+          "coverage": {
+            "status": "page",
+            "examined": 23,
+            "total": 23,
+            "next_offset": null,
+            "exhausted": true
+          }
+        }
+      ],
+      "elapsed_seconds": 108.372,
+      "cpu_seconds": 81.551676,
+      "peak_cgroup_bytes": 1884962816,
+      "outcome": "All facts/costs and CLI/MCP parity passed. Superseded execution source after adding a tokenizer deadline; retained separately, not pooled."
+    },
+    {
+      "scope": "Successful data comparison with direct-child tokenizer timeout before adopting shared owned-process supervision",
+      "preparation_ms": 19051.368892000002,
+      "samples": [
+        {
+          "round": 0,
+          "mode": "legacy",
+          "elapsed_ms": 330.7313439999998,
+          "calls": 24,
+          "structured_reply_bytes": 325201,
+          "facts_sha256": "d3be5e91d2ec3fd9a95851cfbbdef9c168bb4c7153f78810b8b235e005401299",
+          "matching_modules": 23,
+          "coverage": {
+            "status": "page",
+            "examined": 55,
+            "total": 55,
+            "next_offset": null,
+            "exhausted": true
+          }
+        },
+        {
+          "round": 0,
+          "mode": "references",
+          "elapsed_ms": 13.62184999999954,
+          "calls": 1,
+          "structured_reply_bytes": 22158,
+          "facts_sha256": "d3be5e91d2ec3fd9a95851cfbbdef9c168bb4c7153f78810b8b235e005401299",
+          "matching_modules": 23,
+          "coverage": {
+            "status": "page",
+            "examined": 23,
+            "total": 23,
+            "next_offset": null,
+            "exhausted": true
+          }
+        },
+        {
+          "round": 1,
+          "mode": "references",
+          "elapsed_ms": 12.475999999998749,
+          "calls": 1,
+          "structured_reply_bytes": 22158,
+          "facts_sha256": "d3be5e91d2ec3fd9a95851cfbbdef9c168bb4c7153f78810b8b235e005401299",
+          "matching_modules": 23,
+          "coverage": {
+            "status": "page",
+            "examined": 23,
+            "total": 23,
+            "next_offset": null,
+            "exhausted": true
+          }
+        },
+        {
+          "round": 1,
+          "mode": "legacy",
+          "elapsed_ms": 187.18667300000016,
+          "calls": 24,
+          "structured_reply_bytes": 325201,
+          "facts_sha256": "d3be5e91d2ec3fd9a95851cfbbdef9c168bb4c7153f78810b8b235e005401299",
+          "matching_modules": 23,
+          "coverage": {
+            "status": "page",
+            "examined": 55,
+            "total": 55,
+            "next_offset": null,
+            "exhausted": true
+          }
+        },
+        {
+          "round": 2,
+          "mode": "legacy",
+          "elapsed_ms": 293.4882039999975,
+          "calls": 24,
+          "structured_reply_bytes": 325201,
+          "facts_sha256": "d3be5e91d2ec3fd9a95851cfbbdef9c168bb4c7153f78810b8b235e005401299",
+          "matching_modules": 23,
+          "coverage": {
+            "status": "page",
+            "examined": 55,
+            "total": 55,
+            "next_offset": null,
+            "exhausted": true
+          }
+        },
+        {
+          "round": 2,
+          "mode": "references",
+          "elapsed_ms": 8.146389999998064,
+          "calls": 1,
+          "structured_reply_bytes": 22158,
+          "facts_sha256": "d3be5e91d2ec3fd9a95851cfbbdef9c168bb4c7153f78810b8b235e005401299",
+          "matching_modules": 23,
+          "coverage": {
+            "status": "page",
+            "examined": 23,
+            "total": 23,
+            "next_offset": null,
+            "exhausted": true
+          }
+        }
+      ],
+      "elapsed_seconds": 30.742,
+      "cpu_seconds": 30.425218,
+      "peak_cgroup_bytes": 1592938496,
+      "outcome": "Fact and cost parity passed. That harness only killed its immediate tokenizer child; superseded by process-family supervision and detached-helper verification."
+    }
+  ],
+  "prior_tokenizer_timeout_verifications": [
+    {
+      "artifact_sha256": "146ef8470d8cbb4a6db209bdc19bf2bad13350444186c0fd93c31087b142b92f",
+      "scenario": "Real Obsidian references plus CLI parity, then a deliberately stalled tokenizer",
+      "injected_tokenizer_source": "#!/bin/sh\nexec /bin/sleep 30\n",
+      "timeout_ms": 20,
+      "observed_error_code": "ETIMEDOUT",
+      "expected_payload_exit_code": 1,
+      "payload_cleanup_verified": true,
+      "remaining_owned_temporary_files": 0,
+      "elapsed_seconds": 31.258,
+      "cpu_seconds": 31.00025,
+      "peak_cgroup_bytes": 1644077056,
+      "events_at_payload_exit": {
+        "memory.events": {
+          "low": 0,
+          "high": 0,
+          "max": 0,
+          "oom": 0,
+          "oom_kill": 0,
+          "oom_group_kill": 0
+        },
+        "pids.events": {
+          "max": 0
+        }
+      },
+      "scope": "Robustness check; no efficiency credit",
+      "limitation": "Immediate child only; did not test detached descendants and is superseded by the owned-family check."
+    }
+  ],
+  "tokenizer_timeout_verification": {
+    "artifact_sha256": "146ef8470d8cbb4a6db209bdc19bf2bad13350444186c0fd93c31087b142b92f",
+    "scenario": "Real Obsidian references and CLI parity, then an owned tokenizer wrapper with a detached SIGTERM-ignoring helper",
+    "fixture": "scripts/fixtures/tokenizer-family-wrapper.py",
+    "fixture_sha256": "2e9b7092ee539ae1c6a477492f05bb6007d4612dadfff9b90051d621de43049b",
+    "timeout_ms": 2000,
+    "observed_failure_type": "OwnedCommandFailure",
+    "observed_reason": "timeout",
+    "cleanup_failure": null,
+    "expected_payload_exit_code": 1,
+    "payload_cleanup_verified": true,
+    "remaining_owned_temporary_files": 0,
+    "helper_observation": {
+      "pid": 2871108,
+      "group": 2871108,
+      "parent": 2871107,
+      "run_id": "rea-module-token-f139b74a-dd83-498b-b663-e765104159ec",
+      "detached": true,
+      "ignores_sigterm": true
+    },
+    "elapsed_seconds": 55.08,
+    "cpu_seconds": 45.245603,
+    "peak_cgroup_bytes": 1563475968,
+    "events_at_payload_exit": {
+      "memory.events": {
+        "low": 0,
+        "high": 0,
+        "max": 0,
+        "oom": 0,
+        "oom_kill": 0,
+        "oom_group_kill": 0
+      },
+      "pids.events": {
+        "max": 0
+      }
+    },
+    "scope": "Robustness check; no efficiency credit. PIDs are observations; signaling authority comes from the shared process owner."
+  }
+}

docs/verification/javascript-module-references-2026-10-15.md

@@ -0,0 +1,123 @@
+# Retained JavaScript module-reference verification
+
+Tracks #4092 under #4027 and the decision in #4091. This verifies an existing
+tool's data projection, without a code-mode host or SDK. [Machine-readable
+results](javascript-module-references-2026-10-15.json) pin the base revision,
+executed source hashes, samples, tokenizer and resource observations.
+
+## Real application and question
+
+Official Obsidian 1.14.4 ASAR, 27,477,966 bytes, SHA-256
+`146ef8470d8cbb4a6db209bdc19bf2bad13350444186c0fd93c31087b142b92f`.
+The [official gzip](https://github.com/obsidianmd/obsidian-releases/releases/download/v1.14.4/obsidian-1.14.4.asar.gz)
+has SHA-256 `d1ed428c363968774f0f3906e67d8a53a058ece0b6cdd924b07865977b2ada21`.
+Select `package.json` and `main.js`; the other 36 inventoried files remain
+explicitly unselected. No target code is executed.
+
+Question: retrieve every retained `javascript-module` identity at exact path
+`main.js`, its retained source-range observation count, and distinct support
+states. Compare the existing module page plus full item reads with one filtered
+typed reference view. All six completed query samples use one identical retained
+parent. All 23 selected rows, identities, counts and support states match. Public
+CLI inline input and MCP retained input produce the exact same view and Evidence
+ID. This establishes producer-fact consistency, not independent extractor
+correctness or proof of runtime loading.
+
+## Completed read costs
+
+| Measurement                                                   | Existing page + items | Typed reference view |
+| ------------------------------------------------------------- | --------------------: | -------------------: |
+| Calls per query task                                          |                    24 |                    1 |
+| Structured reply bytes                                        |               325,201 |               22,158 |
+| First query in its arm, after preparation                     |             363.03 ms |             14.90 ms |
+| Subsequent same-session query times                           |    232.75 / 235.17 ms |     12.95 / 10.57 ms |
+| Request + structured-reply BPE tokens                         |                74,597 |                5,843 |
+| With selected tool catalog + shared bootstrap request/summary |                85,302 |               16,548 |
+| With complete tool catalog + shared bootstrap request/summary |               272,771 |              204,017 |
+
+Order alternates: existing/reference, reference/existing, existing/reference.
+Times include verifier-side fact normalization and equality checks; byte/token
+accounting follows the timed reads. The initial artifact analysis and summary
+took 20.978 seconds and is shared preparation, not a query-speed improvement.
+The retained source remains partial; unknown counts and source selection are
+preserved independently of exhausted pages. No query cache was introduced.
+
+Tokens are `cl100k_base` counts with tiktoken 0.12.0 over serialized values, not
+hosted-model usage. Catalog projections contain name/description/inputSchema;
+both workflows use the same post-change catalog. Each request/reply is counted
+once. Output schemas, host-specific rendering/replay, reasoning, final answers,
+agent success rates and model latency are unmeasured. This is a completed
+data-retrieval comparison; it does not establish a whole-agent speedup or a
+before/after catalog-size improvement. Legacy item reads are serial; a concurrent
+legacy baseline was not measured. Selected discovery includes both the
+analysis and view tool schemas. Builds/filesystem are warm or uncontrolled,
+so the first query is not an OS-cold analysis measurement. Shared-host scheduling
+was uncontrolled: an earlier successful probe had substantially higher wall/CPU
+times. Its samples are retained separately; neither run establishes a portable
+latency guarantee.
+
+The complete final verifier scope used 35.797 seconds elapsed, 35.197 seconds
+CPU and 1,938,313,216 bytes peak cgroup memory. This includes shared analysis,
+both query arms, temporary export, CLI parity and tokenization; CPU/memory were
+not isolated by arm. Cgroup memory includes charged file cache and is not summed
+process RSS. The whole scope had one CPU, an 8 GiB hard memory cap, 6 GiB early
+stop and no swap. Payload cleanup was verified; no OOM/capacity event occurred.
+An earlier full-response transport failure and interim probes are recorded
+separately in the JSON and earn no performance credit.
+
+A review follow-up exercised a stalled tokenizer after real Obsidian reference
+reads and CLI parity. The committed POSIX fault fixture forks a helper into a
+separate process group, ignores SIGTERM and stalls. With a caller-selected
+2,000 ms deadline, the shared owned-command supervisor reported
+`OwnedCommandFailure` with reason `timeout` and no cleanup failure. The verifier
+failed as expected, its complete owned scope was cleaned, and its selected
+temporary root was empty. The separate robustness run used 55.080 s wall /
+45.246 s CPU / 1,563,475,968 B peak cgroup memory, with cleanup verified and no
+OOM. It earns no efficiency credit. An earlier 20 ms immediate-child timeout
+probe did not establish descendant cleanup; it remains a separate prior attempt.
+The detached-helper scenario was executed on Linux, not Windows or macOS.
+
+A deterministic CI regression also asserts two retained
+observations at the same source range, excludes an unavailable location, and
+checks agreement with the full item view; the count deliberately measures
+observations rather than unique source sites.
+
+## Reproduce
+
+Use the pinned Node/npm toolchain and `npm ci`, then `npm run build:cached`.
+Download/decompress the versioned application outside the checkout and check its
+digest. Run with an operator-selected absolute artifact path:
+
+```bash
+node scripts/verify/javascript/module-references.mjs \
+  --artifact /absolute/path/obsidian-1.14.4.asar \
+  --source-path package.json --source-path main.js \
+  --path main.js --kind javascript-module --rounds 3 --cli-parity \
+  --tokenizer-python /absolute/path/to/tiktoken-venv/bin/python
+```
+
+The optional Python interpreter needs tiktoken 0.12.0; omit that flag to skip
+token accounting. It has a 60-second wall-time deadline, configurable with the
+positive integer `--tokenizer-timeout-ms`. The tokenizer uses the existing
+owned-command supervisor, with native identity checks and inherited run-token
+sweeping for descendants. Inputs and temporary Evidence use the existing private
+runtime root. Cleanup attempts preserve the primary error; incomplete command
+cleanup retains its owner and private files for recovery. `--mode legacy` or
+`--mode references` runs one arm. Fresh runs
+reanalyze the artifact and can produce different parent identities/resource
+coverage; the verifier requires equal facts within its paired run. The measured
+run additionally used the preserved [8 GiB cgroup observer](https://github.com/morluto/rea/blob/b3bdabab694af1f9801eff7caf75001b92314a58/experiments/analysis-efficiency/resource-run.py)
+and its adjacent `resource_payload.py`; observer hashes are in the JSON.
+No application, complete bundle, raw observations or ambient environment is
+archived. Temporary exported/inline Evidence files are removed after successful
+owned-command cleanup.
+
+For the Linux descendant-timeout check, create an operator-selected private
+directory and set `REA_TOKENIZER_PROBE_RECORD` to a file within it. Run the same
+real-artifact command with `--mode references --rounds 1`, replace the tokenizer
+with the absolute path to `scripts/fixtures/tokenizer-family-wrapper.py`, and add
+`--tokenizer-timeout-ms 2000`. Expect a timeout failure. The explicit marker
+confirms the detached helper started; the resource observer must separately
+verify the complete owned scope is empty, and the selected temporary root must
+contain no verifier files. The recorded PID is an observation, not authority to
+signal that process.

docs/windows-ghidra-p0.md

@@ -17,7 +17,7 @@ additional permission flag or degraded mode is required.
 - Node.js 22.x (>=22.19), 24.x (>=24.11), or 26+;
 - an operator-installed Ghidra 12.1.x distribution (verified with 12.1.4);
 - a 64-bit full JDK inside that installation's declared Java range (JDK 21 or newer, with no maximum, for current 12.1 releases);
-- an explicit native, non-managed x86 or x86-64 PE application/DLL, or a
+- an explicit native, non-managed x86, x86-64, ARMNT (Thumb-2) or ARM64 PE application/DLL, or a
   [raw NMOS 6502 image](raw-binary.md#nmos-6502) with a caller-supplied entry; and
 - the 26 read-only Ghidra inventory, memory, and function-analysis operations.
 
@@ -135,9 +135,55 @@ and artifact SHA-256 before loading the package-owned addon. Native failure
 reasons remain distinct from a valid installation and an unsupported target.
 
 PE header classification and SHA-256 come from the same open file. The Windows
-provider admits native x86 and x86-64 PE applications and DLLs and rejects unsupported roles,
+provider admits native x86, x86-64, ARMNT (Thumb-2) and ARM64 PE applications and DLLs and rejects unsupported roles,
 architectures, managed images, and malformed headers. The original selected
-source coordinate is preserved for native admission.
+source coordinate is preserved for native admission. The original COFF machine is
+retained separately from the normalized CPU family. ARM admission requires the
+observed ARMNT machine 0x01C4; ARM64 requires 0xAA64. Legacy ARM (0x01C0), Thumb
+(0x01C2), and unavailable machine facts do not select this Windows lane.
+Without a caller-selected processor override, Ghidra's PE loader
+selects the language from the PE machine field: ARM (`IMAGE_FILE_MACHINE_ARMNT`)
+imports as `ARM:LE:32:v8` (Thumb), ARM64 (`IMAGE_FILE_MACHINE_ARM64`) as
+`AARCH64:LE:64:v8A`. Explicit language/compiler selections remain caller choices
+in the analysis profile and are recorded as explicit imports. The source
+fixture verifier compares the complete observed language ID, not just its CPU
+family prefix. ARM/ARM64 admission is a bounded extension of the x86/x64
+lane. `npm run verify:ghidra:windows -- --arm` or `-- --arm64`, optionally
+combined with `--dll`, selects encoded Thumb or ARM64 PE fixtures on a Windows
+x64 host. The packaged verifier accepts the same flags. These fixtures are not
+compiler-produced programs. ARM64EC (machine 0xA641) and ARM64X are not admitted;
+this target support does not establish Windows-on-Arm host support.
+
+Real Windows x64 verification with Ghidra 12.1.4 and JDK 21 completed the ARM64
+application and ARMNT/Thumb DLL fixtures' 26 read-only operations, constant-return
+decompilation, byte searches, CLI/MCP file-offset parity, source identity, and
+owned cleanup. The DLL fixture also verifies the exported caller/callee
+relationship. The x86/x64 compact-reference value-flow battery does not cover
+ARM or ARM64 instructions. ARM64 EXE file-offset verification includes ambiguous
+mappings; the single-section ARM32 DLL cannot exercise that case.
+
+The runs used two logical CPUs, 512 MiB Node/JVM heaps, a 900-second startup
+budget, and an explicit `REA_GHIDRA_DISABLED_ANALYZERS=WindowsResourceReference`
+test configuration. Default-analyzer runs exceeded the selected startup budget;
+resource-reference analysis and default-configuration completion are not
+established by these results. A Microsoft-signed Coreinfo ARM64 application also
+completed focused MCP decompilation, repeated readback, source-mapped memory
+reads, unchanged-input and cleanup checks. On this constrained host the first
+function query, including cold analysis, took about 434 seconds; its identical
+same-session read took about 23 ms and returned about 4.6 KiB of Evidence. These
+are individual observations, not general latency guarantees. Public ARM32
+DLL verification also completed against Microsoft Visual C++ 2013 ARM
+`msvcr120.dll`, including decompilation of its exported `abs`, repeated readback,
+source-mapped bytes, unchanged-input and cleanup checks. Its first function
+query took about 601 seconds; the same-session repeat took about 11 ms and
+returned about 4.8 KiB of Evidence. After preserving original COFF machines in the
+admission/profile, a further real Windows check rejected legacy ARM/Thumb and
+retained ARMNT/ARM64 admission. A rebuilt-candidate MSVCR120 query completed
+in about 407 seconds with a 15 ms repeat (4,830 bytes of Evidence), unchanged
+input and complete cleanup. That retry selected an 1,800-second startup budget
+after an additional 900-second attempt timed out. The resource bounds were
+unchanged; these observations do not establish a speedup. Configured processor
+selection is covered by profile tests, not these real-provider runs.
 
 Admission opens and checks every path component without following a reparse
 point. It retains handles, verifies local NTFS semantics, and observes volume
@@ -200,6 +246,8 @@ npm run verify:ghidra:windows
 npm run verify:ghidra:windows -- --x86
 npm run verify:ghidra:windows -- --dll
 npm run verify:ghidra:windows -- --x86 --dll
+npm run verify:ghidra:windows -- --arm64
+npm run verify:ghidra:windows -- --arm64 --dll
 npm run verify:ghidra:windows:package -- --x86
 npm run verify:ghidra:windows:package -- --dll
 npm run verify:ghidra:windows:package -- --x86 --dll

experiments/atomic-re-tools/README.md

@@ -0,0 +1,154 @@
+# Atomic RE tools: an experiment
+
+Experimental branch only: no PR, merge, production registration, or Code Mode.
+Started from REA main `5b16f2431062eea6ffd245a9e05512790007cb13`.
+
+Read [measured results](results.md) and [mechanism / prior-art notes](research.md).
+The first round includes an object-reference counterexample and a failed
+code-mapping composition; it does not claim every hypothesis succeeded.
+The [control-flow / SSA follow-up](relations.md) repairs three zlib mapping
+paths, tests a SQLite call guard, and records where structured slices cost more.
+
+The question is whether composable facts improve **completed reverse-engineering
+tasks**, especially on complex software. Three outcomes matter together:
+
+1. Time, native work, CPU and process-family memory, including startup and retries.
+2. Whole-task estimated tokens: catalog, arguments, results and necessary follow-up.
+3. Correct answers with traceable evidence, meaningful coverage and explicit unknowns.
+
+Smaller replies, fewer tool names and fewer calls are intermediate measurements,
+not proof of a better investigation. Negative results are useful experiment results.
+
+## Working definition
+
+An atom is a coherent fact or relationship about an identified object, with its
+producing evidence and uncertainty. It need not be a single field, MCP call,
+instruction, native command or engine pass. A string's encoding and the status of
+that encoding belong together; separating them can change the meaning.
+
+Candidate reusable building blocks:
+
+| Object / fact                        | Relationships and questions                                                             |
+| ------------------------------------ | --------------------------------------------------------------------------------------- |
+| Artifact and analysis context        | Which bytes, architecture, address space and analysis profile produced this?            |
+| Location and byte span               | What is mapped here? Where are the source bytes? Is the span initialized?               |
+| Instruction                          | What bytes decoded here, and with which mode and provenance?                            |
+| Function                             | Which entry is identified? Which locations does the engine actually assign to its body? |
+| String, symbol, type                 | What was observed or recovered, and what remains unknown?                               |
+| Reference / call / control-flow edge | What are both endpoints, the reference site, kind and coverage?                         |
+| Decompiled view                      | Which engine reconstruction and machine locations support this selected text?           |
+
+An inventory extent is an upper bound, not proof that an interior address belongs
+to the preceding function. A reference to a string's start address is not proof
+of a runtime string use, and misses references into its interior. Different
+providers' recovered functions and types are not automatically the same entities.
+
+Identity needs artifact digest + analysis profile + address space + object kind
+and location/discriminator. A separate session lease controls whether a handle
+is still usable. Identity, existence, lookup success and readiness are distinct.
+
+## Hypotheses to try to falsify
+
+- Fine-grained getters can lose to coherent fact batches through repeated
+  envelopes, schemas and round trips.
+- A small workflow can be built from the same facts without maintaining a second
+  analysis implementation. Explicit selection must survive composition.
+- Batching at MCP may reduce agent turns without saving any native analysis.
+  The engine's unit of work must be measured separately from the fact/read unit.
+- Richer structured relations can improve investigation completeness more than
+  another wrapper around whole-function C text.
+- On complex targets, a narrow result can omit the decisive evidence. Compare
+  coverage and final answers, counting all extra reads and failed paths.
+
+## First prototype
+
+`facts.mjs` consumes REA's existing normalized observations. It does not parse
+assembly/C or guess ownership. The same methods support individual reads,
+homogeneous batches, and one string-reference-function workflow. Native analysis,
+target admission, caches, cancellation and full Evidence ownership stay in REA.
+
+`server.mjs` adds experimental tools to the **complete** production MCP catalog.
+It does not hide unrelated schemas to manufacture catalog savings. The additional
+schemas are included in costs. Its operations are static reads; it never executes
+the target or mutates an attached analysis database.
+
+`benchmark.mjs` compares production calls, individual fact calls, batches and
+composition using actual MCP clients and actual Kuna/Ghidra. Verification runs
+are separate from timed equivalent-work runs. Each performance run repeats the
+task in one session to distinguish first queries and warm native caches. Cold
+Ghidra import/open cost must also be reported, not hidden in the query timer.
+
+The prototype projects the current address-only `xrefs` contract. Reference kinds
+stay unknown. Unsupported containing-function resolution stays unknown without
+futile retries. This is intentionally a way to expose integration gaps rather
+than claim that the adapter can recover information already discarded upstream.
+Full Evidence is explicitly readable while its existing session owner retains
+it; closing the binary expires those records. Paging covers the provider-returned
+set and never establishes complete artifact discovery.
+
+This is not a production contract proposal. Overlays, non-default address spaces,
+typed edges, native batching and live agent decision quality need further work.
+No measured claim about improved complex-program reasoning is established yet.
+
+## Native experiments
+
+After the build described below, with `REA_KUNA_COMMAND` configured:
+
+```sh
+mkdir -p .cache/atomic-re-tools
+gcc -O2 -fno-pie -no-pie -o .cache/atomic-re-tools/interior-reference \
+  experiments/atomic-re-tools/interior-reference.c
+
+# Run once for each variant: per-address, then inventory.
+python3 experiments/analysis-efficiency/resource-run.py --observe-payload-exit -- \
+  node experiments/atomic-re-tools/native-relations.mjs \
+  .cache/atomic-re-tools/interior-reference HEAD:REA per-address \
+  .cache/atomic-re-tools/native-interior-per-address
+
+python3 experiments/atomic-re-tools/verify-interior.py \
+  .cache/atomic-re-tools/interior-reference \
+  .cache/atomic-re-tools/native-interior-per-address.report.json \
+  .cache/atomic-re-tools/native-interior-inventory.report.json
+```
+
+Use the installed zlib/SQLite paths and `incorrect`/`malformed` to repeat the
+native plan comparison. Append `--code-slice` to the per-address experiment for
+an exact instruction-to-line probe. `mapped-code.mjs` rejects unsupported address
+precision and never substitutes a nearby line for a missing mapping.
+
+The experiment adds an opt-in typed reference projection at the existing Kuna
+protocol owner. The existing public address-only result and its retained cache
+shape remain the same; ordinary queries do not materialize the richer facts.
+Experimental MCP tools have live-validated input schemas, but no canonical
+output-schema/product-catalog integration. They are not a production SDK/API.
+
+The v2 facade labels reference scope explicitly and connects **locations** in its
+point-reference edges. A result's `target` preserves the caller's selector; it
+is not a separate observation proving that an object exists at that address.
+All experimental MCP results carry REA's canonical untrusted-target-content
+marker. The v1 measurement table is retained with its revision label; it is not
+relabelled as a measurement of this later response shape.
+
+## Reproduce
+
+Use the repository's pinned Node/npm and run `npm ci`, then
+`npm run build:cached`. Supply existing installations through `REA_KUNA_COMMAND`,
+`GHIDRA_INSTALL_DIR` and `JAVA_HOME`; this experiment installs no provider.
+
+```sh
+node --test experiments/atomic-re-tools/facts.test.mjs
+
+# Existing bounded runner: one CPU, 4 GiB hard memory cap, early stop at 3 GiB.
+# Its payload-exit counters include all processes in the owned scope.
+python3 experiments/analysis-efficiency/resource-run.py --observe-payload-exit -- \
+  node experiments/atomic-re-tools/benchmark.mjs \
+  kuna batch /usr/lib/x86_64-linux-gnu/libz.so.1 incorrect \
+  .cache/atomic-re-tools/kuna-batch
+```
+
+Use `baseline`, `fine`, `batch`, or `workflow`, and `ghidra` or `kuna`.
+Append `--verify` for additional lifecycle, paging, negative and Evidence checks;
+those runs must not be used as equivalent-work performance samples. Binaries,
+provider projects, captured catalogs/traffic and local measurements stay ignored
+under `.cache/atomic-re-tools/`, never in commits. Summarize reproducible results
+and limitations here as experiments finish.

experiments/atomic-re-tools/benchmark.mjs

@@ -0,0 +1,375 @@
+import assert from "node:assert/strict";
+import { mkdir, writeFile } from "node:fs/promises";
+import { dirname, resolve } from "node:path";
+import { createHash } from "node:crypto";
+import { readFile } from "node:fs/promises";
+import { Client } from "@modelcontextprotocol/client";
+import { StdioClientTransport } from "@modelcontextprotocol/client/stdio";
+import Ajv2020 from "ajv/dist/2020.js";
+import { requireMcpOperationResult } from "../../scripts/lib/mcp-verifier-results.mjs";
+import {
+  createVerifierRun,
+  completeVerifierRun,
+  assertVerifierCleanupComplete,
+} from "../../scripts/lib/verifier-run.mjs";
+
+const [provider, variant, binary, pattern, prefix, verification] =
+  process.argv.slice(2);
+assert.ok(["ghidra", "kuna"].includes(provider));
+assert.ok(["baseline", "fine", "batch", "workflow"].includes(variant));
+assert.ok(binary && pattern && prefix);
+await mkdir(dirname(prefix), { recursive: true });
+const verifier = createVerifierRun();
+const client = new Client({ name: "rea-atomic-experiment", version: "0.1.0" });
+const transport = new StdioClientTransport({
+  command: process.execPath,
+  args: [
+    resolve(
+      variant === "baseline"
+        ? "dist/main.js"
+        : "experiments/atomic-re-tools/server.mjs",
+    ),
+  ],
+  env: {
+    ...process.env,
+    REA_LOG_LEVEL: "error",
+    REA_MCP_OUTPUT_SCHEMA_PROFILE:
+      process.env.REA_MCP_OUTPUT_SCHEMA_PROFILE ?? "full",
+    REA_KUNA_CACHE_DIR: resolve(`${prefix}.kuna-cache`),
+    REA_KUNA_JOBS: "1",
+    GHIDRA_HEADLESS_MAXMEM: "1G",
+    REA_GHIDRA_STARTUP_TIMEOUT_MS: "120000",
+  },
+  stderr: "pipe",
+});
+let stderr = "";
+transport.stderr?.on("data", (part) => {
+  stderr = (stderr + part).slice(-32_768);
+});
+const wire = [],
+  calls = [],
+  checks = [],
+  failures = [];
+let phase = "lifecycle";
+const call = async (name, arguments_ = {}, expectError = false) => {
+  const started = performance.now();
+  const response = await client.callTool(
+    { name, arguments: arguments_ },
+    { timeout: 180000 },
+  );
+  wire.push({ request: { name, arguments: arguments_ }, response, phase });
+  if (name.startsWith("experiment_"))
+    assert.equal(
+      response._meta?.provenance?.untrusted_content,
+      true,
+      "Experimental results lost the canonical target-content marker",
+    );
+  calls.push({ name, phase, elapsed_ms: performance.now() - started });
+  if (expectError) {
+    assert.equal(response.isError, true);
+    return JSON.parse(
+      response.content.find((part) => part.type === "text").text,
+    );
+  }
+  assert.notEqual(
+    response.isError,
+    true,
+    JSON.stringify(response).slice(0, 2000),
+  );
+  return name.startsWith("experiment_")
+    ? JSON.parse(response.content.find((part) => part.type === "text").text)
+    : requireMcpOperationResult(response, name);
+};
+const contextInput = (context) => ({ ref: context.ref, lease: context.lease });
+const stringLimit = 3,
+  referenceLimit = 4;
+const query = { pattern, mode: "literal", case_sensitive: true };
+const identity = (row) => ({
+  kind: "string",
+  address: row.address,
+  encoding: row.string?.encoding ?? null,
+});
+
+const readBatch = async (name, common, { key, items, individually }) => {
+  if (!individually) return call(name, { ...common, [key]: items });
+  const results = [];
+  for (const item of items)
+    results.push(...(await call(name, { ...common, [key]: [item] })).results);
+  return { results };
+};
+const readExperimentalTask = async (supportsOwners) => {
+  const input = { query, limit: stringLimit, fields: ["value"] };
+  if (variant === "workflow") {
+    const traced = await call("experiment_trace_string_uses", {
+      ...input,
+      reference_limit: referenceLimit,
+    });
+    return {
+      found: traced.strings,
+      refs: traced.references,
+      owners: traced.functions,
+    };
+  }
+  const found = await call("experiment_find_strings", input);
+  const context = contextInput(found.context);
+  const refs = await readBatch(
+    "experiment_incoming_refs",
+    { context, limit: referenceLimit },
+    {
+      key: "targets",
+      items: found.items.map((row) => row.id),
+      individually: variant === "fine",
+    },
+  );
+  const locations = [
+    ...new Map(
+      refs.results
+        .flatMap((row) => row.items ?? [])
+        .map((row) => [row.from.address, row.from]),
+    ).values(),
+  ];
+  const owners = await readBatch(
+    "experiment_resolve_functions",
+    { context },
+    {
+      key: "locations",
+      items: locations,
+      individually: variant === "fine" && supportsOwners,
+    },
+  );
+  return { found, refs, owners };
+};
+
+let catalog,
+  firstSourceId,
+  firstContext,
+  outcomes = [];
+try {
+  await client.connect(transport);
+  catalog = await client.listTools();
+  const expectedOutputSchemas =
+    process.env.REA_MCP_OUTPUT_SCHEMA_PROFILE === "off"
+      ? 0
+      : catalog.tools.filter((tool) => !tool.name.startsWith("experiment_"))
+          .length;
+  assert.equal(
+    catalog.tools.filter((tool) => Object.hasOwn(tool, "outputSchema")).length,
+    expectedOutputSchemas,
+    "Advertised output-schema profile differs from the requested profile",
+  );
+  const ajv = new Ajv2020({ strict: false, validateFormats: false });
+  for (const tool of catalog.tools.filter((tool) =>
+    tool.name.startsWith("experiment_"),
+  )) {
+    assert.equal(
+      ajv.validateSchema(tool.inputSchema),
+      true,
+      JSON.stringify(ajv.errors),
+    );
+    ajv.compile(tool.inputSchema);
+  }
+  await call("open_binary", { path: resolve(binary), provider_id: provider });
+  const status = await call("binary_session");
+  const supportsOwners = status.capabilities.some(
+    (row) => row.operation === "resolve_containing_procedure" && row.available,
+  );
+  for (phase of ["cold", "warm"]) {
+    const started = performance.now();
+    let strings, references, functions;
+    if (variant === "baseline") {
+      const all = await call("search_strings", query);
+      strings = all
+        .slice(0, stringLimit)
+        .map((row) => ({ id: identity(row), value: row.value }));
+      references = [];
+      for (const string of strings)
+        references.push({
+          target: string.id,
+          items: (await call("xrefs", { address: string.id.address })).slice(
+            0,
+            referenceLimit,
+          ),
+        });
+      const locations = [...new Set(references.flatMap((row) => row.items))];
+      functions = [];
+      for (const address of locations)
+        functions.push(
+          supportsOwners
+            ? {
+                address,
+                resolution: await call("resolve_containing_procedure", {
+                  address,
+                }),
+              }
+            : { address, status: "unknown" },
+        );
+    } else {
+      const { found, refs, owners } =
+        await readExperimentalTask(supportsOwners);
+      assert.equal(found.status, "ok");
+      assert.ok(refs.results.every((row) => row.status === "ok"));
+      firstSourceId ??= found.evidence_id;
+      firstContext ??= found.context;
+      strings = found.items.map((row) => ({ id: row.id, value: row.value }));
+      references = refs.results.map((row) => ({
+        target: row.target,
+        items: row.items.map((edge) => edge.from.address),
+      }));
+      functions = owners.results.map((row) =>
+        row.status === "ok"
+          ? { address: row.location.address, resolution: row.resolution }
+          : { address: row.location.address, status: "unknown" },
+      );
+    }
+    outcomes.push({
+      phase,
+      elapsed_ms: performance.now() - started,
+      strings,
+      references,
+      functions,
+    });
+  }
+  assert.deepEqual(outcomes[0].strings, outcomes[1].strings);
+  assert.deepEqual(outcomes[0].references, outcomes[1].references);
+  assert.deepEqual(outcomes[0].functions, outcomes[1].functions);
+  assert.ok(outcomes[0].strings.length > 0);
+  phase = "verification";
+  if (variant !== "baseline" && verification === "--verify") {
+    const raw = await call("experiment_read_evidence", {
+      evidence_id: firstSourceId,
+    });
+    assert.equal(raw.evidence.operation, "search_strings");
+    assert.equal(
+      raw.evidence.analysis_profile.digest,
+      firstContext.analysis_profile_digest,
+    );
+    assert.equal(
+      raw.evidence.subject.digest.sha256,
+      createHash("sha256")
+        .update(await readFile(binary))
+        .digest("hex"),
+    );
+    assert.deepEqual(
+      raw.evidence.normalized_result
+        .slice(0, stringLimit)
+        .map((row) => ({ id: identity(row), value: row.value })),
+      outcomes[0].strings,
+    );
+    const duplicate = await call("experiment_incoming_refs", {
+      context: contextInput(firstContext),
+      targets: [outcomes[0].strings[0].id, outcomes[0].strings[0].id],
+      limit: 1,
+    });
+    assert.deepEqual(duplicate.results[0], duplicate.results[1]);
+    const nextPage = await call("experiment_find_strings", {
+      query,
+      offset: stringLimit,
+      limit: stringLimit,
+    });
+    assert.deepEqual(
+      nextPage.items.map((row) => row.id),
+      raw.evidence.normalized_result
+        .slice(stringLimit, stringLimit * 2)
+        .map(identity),
+    );
+    const negative = await call("experiment_find_strings", {
+      query: { pattern: "\u0000REA-atomic-negative\u0000" },
+    });
+    assert.equal(negative.items.length, 0);
+    assert.equal(negative.coverage.status, "unknown");
+    const stale = await call(
+      "experiment_incoming_refs",
+      {
+        context: {
+          ref: "different-artifact-or-profile",
+          lease: firstContext.lease,
+        },
+        targets: [outcomes[0].strings[0].id],
+      },
+      true,
+    );
+    assert.equal(stale.status, "error");
+    await call("close_binary");
+    assert.equal(
+      (
+        await call(
+          "experiment_read_evidence",
+          { evidence_id: firstSourceId },
+          true,
+        )
+      ).error.code,
+      "not_found",
+    );
+    await call("open_binary", { path: resolve(binary), provider_id: provider });
+    const expired = await call(
+      "experiment_incoming_refs",
+      {
+        context: contextInput(firstContext),
+        targets: [outcomes[0].strings[0].id],
+      },
+      true,
+    );
+    assert.equal(expired.status, "error");
+    checks.push(
+      "retained-evidence",
+      "paging",
+      "duplicate-targets",
+      "negative-unknown",
+      "foreign-context",
+      "expired-lease",
+    );
+  }
+} catch (error) {
+  failures.push(String(error.stack ?? error));
+}
+phase = "lifecycle";
+try {
+  await call("close_binary");
+} catch (error) {
+  failures.push(String(error));
+}
+await client.close().catch((error) => failures.push(String(error)));
+await transport.close().catch((error) => failures.push(String(error)));
+const lifecycle = await completeVerifierRun(verifier);
+try {
+  assertVerifierCleanupComplete(lifecycle.process_lineage);
+} catch (error) {
+  failures.push(String(error));
+}
+const report = {
+  provider,
+  variant,
+  binary: resolve(binary),
+  pattern,
+  node_version: process.versions.node,
+  target_sha256: createHash("sha256")
+    .update(await readFile(binary))
+    .digest("hex"),
+  string_limit: stringLimit,
+  reference_limit: referenceLimit,
+  outcomes,
+  calls,
+  checks,
+  failures,
+  verification_only: verification === "--verify",
+  lifecycle,
+};
+await writeFile(`${prefix}.wire.json`, JSON.stringify(wire));
+await writeFile(`${prefix}.catalog.json`, JSON.stringify(catalog));
+await writeFile(`${prefix}.report.json`, JSON.stringify(report, null, 2));
+await writeFile(`${prefix}.stderr.txt`, stderr);
+console.log(
+  JSON.stringify({
+    provider,
+    variant,
+    calls: calls.length,
+    outcomes: outcomes.map(({ strings, references, functions, ...rest }) => ({
+      ...rest,
+      strings: strings.length,
+      references: references.flatMap((row) => row.items).length,
+      functions: functions.length,
+    })),
+    failures,
+  }),
+);
+assert.deepEqual(failures, []);

experiments/atomic-re-tools/capture-function.mjs

@@ -0,0 +1,140 @@
+// Capture the existing public MCP function dossier, without changing its contract.
+import assert from "node:assert/strict";
+import { createHash } from "node:crypto";
+import { mkdir, readFile, writeFile } from "node:fs/promises";
+import { dirname, resolve } from "node:path";
+import { Client } from "@modelcontextprotocol/client";
+import { StdioClientTransport } from "@modelcontextprotocol/client/stdio";
+import {
+  requireMcpOperationResult,
+  requireMcpToolError,
+} from "../../scripts/lib/mcp-verifier-results.mjs";
+import {
+  createVerifierRun,
+  completeVerifierRun,
+  assertVerifierCleanupComplete,
+} from "../../scripts/lib/verifier-run.mjs";
+
+const [provider, binary, procedure, prefix] = process.argv.slice(2);
+assert.ok(
+  ["ghidra", "kuna"].includes(provider) && binary && procedure && prefix,
+);
+await mkdir(dirname(prefix), { recursive: true });
+const verifier = createVerifierRun();
+const client = new Client({
+  name: "rea-relation-experiment",
+  version: "0.1.0",
+});
+const transport = new StdioClientTransport({
+  command: process.execPath,
+  args: [resolve("dist/main.js")],
+  env: {
+    ...process.env,
+    REA_LOG_LEVEL: "error",
+    REA_MCP_OUTPUT_SCHEMA_PROFILE: "off",
+    GHIDRA_HEADLESS_MAXMEM: "1G",
+    REA_GHIDRA_STARTUP_TIMEOUT_MS: "120000",
+    REA_KUNA_CACHE_DIR: resolve(`${prefix}.kuna-cache`),
+    REA_KUNA_JOBS: "1",
+  },
+  stderr: "pipe",
+});
+let stderr = "";
+transport.stderr?.on("data", (part) => {
+  stderr = (stderr + part).slice(-32_768);
+});
+const wire = [],
+  calls = [],
+  failures = [];
+let catalog;
+const call = async (name, arguments_ = {}, acceptRetained = false) => {
+  const start = performance.now();
+  const response = await client.callTool(
+    { name, arguments: arguments_ },
+    { timeout: 180000 },
+  );
+  wire.push({ request: { name, arguments: arguments_ }, response });
+  calls.push({ name, elapsed_ms: performance.now() - start });
+  if (response.isError === true && acceptRetained) {
+    const error = requireMcpToolError(response);
+    const source = error.details?.reported_limits?.evidence_reference;
+    assert.equal(error.code, "resource_constraint");
+    assert.equal(source?.kind, "retained-evidence");
+    await call("inspect_analysis_view", {
+      source,
+      view: { kind: "native", facet: "value_flow_summary" },
+    });
+    return { retained: source, initial_error: error };
+  }
+  assert.notEqual(
+    response.isError,
+    true,
+    JSON.stringify(response).slice(0, 1600),
+  );
+  return requireMcpOperationResult(response, name);
+};
+try {
+  await client.connect(transport);
+  catalog = await client.listTools();
+  assert.ok(
+    catalog.tools.every((tool) => !Object.hasOwn(tool, "outputSchema")),
+  );
+  await call("open_binary", { path: resolve(binary), provider_id: provider });
+  await call("binary_session");
+  for (const phase of ["first", "warm"]) {
+    const dossier = await call("analyze_function", { procedure }, true);
+    await writeFile(`${prefix}.${phase}.json`, JSON.stringify(dossier), {
+      flag: "wx",
+    });
+  }
+  await call("export_evidence_bundle", {
+    path: resolve(`${prefix}.bundle.json`),
+  });
+} catch (error) {
+  failures.push(String(error.stack ?? error));
+} finally {
+  try {
+    await call("close_binary");
+  } catch (error) {
+    failures.push(String(error));
+  }
+  await client.close().catch((error) => failures.push(String(error)));
+  await transport.close().catch((error) => failures.push(String(error)));
+}
+const lifecycle = await completeVerifierRun(verifier);
+let cleanupVerified = false;
+try {
+  assertVerifierCleanupComplete(lifecycle.process_lineage);
+  cleanupVerified = true;
+} catch (error) {
+  failures.push(String(error));
+}
+await writeFile(`${prefix}.wire.json`, JSON.stringify(wire), { flag: "wx" });
+await writeFile(`${prefix}.catalog.json`, JSON.stringify(catalog), {
+  flag: "wx",
+});
+await writeFile(`${prefix}.stderr.txt`, stderr, { flag: "wx" });
+const report = {
+  provider,
+  binary: resolve(binary),
+  procedure,
+  target_sha256: createHash("sha256")
+    .update(await readFile(binary))
+    .digest("hex"),
+  node_version: process.versions.node,
+  calls,
+  failures,
+  lifecycle,
+};
+await writeFile(`${prefix}.report.json`, JSON.stringify(report, null, 2), {
+  flag: "wx",
+});
+console.log(
+  JSON.stringify({
+    provider,
+    calls,
+    failures,
+    cleanup_verified: cleanupVerified,
+  }),
+);
+if (failures.length) process.exitCode = 1;

experiments/atomic-re-tools/capture-kuna-structure.mjs

@@ -0,0 +1,109 @@
+// Native diagnostic probes; these text dumps are not a typed provider contract.
+import assert from "node:assert/strict";
+import { createHash } from "node:crypto";
+import { mkdir, readFile, writeFile } from "node:fs/promises";
+import { dirname, resolve } from "node:path";
+import { parseBinaryTarget } from "../../dist/application/BinaryTargetResolver.js";
+import { inspectKunaInstallation } from "../../dist/kuna/KunaInstallation.js";
+import { KunaTargetCommands } from "../../dist/kuna/KunaTargetCommands.js";
+import { AnalysisError } from "../../dist/domain/analysisErrorBase.js";
+import { projectAnalysisError } from "../../dist/domain/analysisErrorProjection.js";
+import {
+  createVerifierRun,
+  completeVerifierRun,
+  assertVerifierCleanupComplete,
+} from "../../scripts/lib/verifier-run.mjs";
+
+const [binary, procedure, view, prefix] = process.argv.slice(2);
+assert.ok(binary && /^0x[0-9a-f]+$/u.test(procedure) && prefix);
+assert.ok(["raw", "regions", "assembly"].includes(view));
+await mkdir(dirname(prefix), { recursive: true });
+const verifier = createVerifierRun();
+const lifetime = new AbortController();
+const target = await parseBinaryTarget(binary);
+assert.ok(target.ok);
+const installed = await inspectKunaInstallation({
+  ...process.env,
+  REA_KUNA_CACHE_DIR: resolve(`${prefix}.cache`),
+});
+assert.ok(installed.ok);
+const commands = new KunaTargetCommands(target.value, {
+  signal: lifetime.signal,
+});
+const failures = [],
+  calls = [];
+try {
+  const arguments_ = (input) =>
+    view === "assembly"
+      ? ["disassemble", input, procedure, "--addr", "--json"]
+      : [
+          "decompile",
+          input,
+          procedure,
+          "--addr",
+          `--${view}`,
+          "--max-fn-memory",
+          "1024",
+        ];
+  const start = performance.now();
+  const outcome = await commands.run({
+    installation: installed.value,
+    operation: "experiment:structure",
+    arguments: arguments_,
+    outputBytes: 16 * 1024 * 1024,
+    timeoutMs: 120000,
+    signal: lifetime.signal,
+  });
+  if (!outcome.ok) throw outcome.error;
+  const snapshot = outcome.value;
+  const file = `${prefix}.native.txt`;
+  await writeFile(file, snapshot.stdout.text, { flag: "wx" });
+  calls.push({
+    arguments: arguments_(snapshot.input),
+    elapsed_ms: performance.now() - start,
+    file,
+    bytes: Buffer.byteLength(snapshot.stdout.text),
+    sha256: createHash("sha256").update(snapshot.stdout.text).digest("hex"),
+  });
+} catch (error) {
+  failures.push(
+    error instanceof AnalysisError
+      ? projectAnalysisError(error)
+      : String(error.stack ?? error),
+  );
+} finally {
+  lifetime.abort();
+  await commands.close();
+}
+const lifecycle = await completeVerifierRun(verifier);
+let cleanupVerified = false;
+try {
+  assertVerifierCleanupComplete(lifecycle.process_lineage);
+  cleanupVerified = true;
+} catch (error) {
+  failures.push(String(error));
+}
+const report = {
+  binary: resolve(binary),
+  procedure,
+  view,
+  calls,
+  failures,
+  lifecycle,
+  engine: { version: installed.value.version, sha256: installed.value.sha256 },
+  target_sha256: createHash("sha256")
+    .update(await readFile(binary))
+    .digest("hex"),
+};
+await writeFile(`${prefix}.report.json`, JSON.stringify(report, null, 2), {
+  flag: "wx",
+});
+console.log(
+  JSON.stringify({
+    view,
+    calls,
+    failures,
+    cleanup_verified: cleanupVerified,
+  }),
+);
+if (failures.length) process.exitCode = 1;

experiments/atomic-re-tools/facts.mjs

@@ -0,0 +1,210 @@
+// Experimental application layer. Provider parsing and native caches remain in REA.
+import { createHash } from "node:crypto";
+
+export const contextFor = (artifactSha, profile, lease) => {
+  const identity = {
+    artifact_sha256: artifactSha,
+    analysis_profile_digest: profile.digest,
+    address_space: "provider-default",
+  };
+  return {
+    ref: createHash("sha256").update(JSON.stringify(identity)).digest("hex"),
+    ...identity,
+    provider: profile.provider,
+    lease,
+  };
+};
+
+const failure = (code, message) => ({
+  status: "error",
+  error: { code, message },
+});
+const source = (evidence) => ({
+  evidence_id: evidence.evidence_id,
+  confidence: evidence.confidence,
+  limitations: evidence.limitations,
+});
+const pageOf = (items, offset, limit) => ({
+  items: items.slice(offset, offset + limit),
+  selection: {
+    matched: items.length,
+    offset,
+    returned: Math.max(0, Math.min(limit, items.length - offset)),
+    next_offset: offset + limit < items.length ? offset + limit : null,
+  },
+});
+
+/** One fact can be read alone or in a batch; a batch is not a new fact kind. */
+export class FactQueries {
+  constructor(port) {
+    this.port = port;
+  }
+
+  async findStrings({ query, offset = 0, limit = 20, fields = ["value"] }) {
+    const observed = await this.port.observe("search_strings", query);
+    if (!observed.ok) return { status: "error", error: observed.error };
+    const evidence = observed.value;
+    const all = evidence.normalized_result;
+    const page = pageOf(all, offset, limit);
+    return {
+      status: "ok",
+      context: this.port.context(),
+      ...source(evidence),
+      selection: page.selection,
+      // Paging is complete over this provider's answer, not all artifact strings.
+      coverage: {
+        status: "unknown",
+        reason:
+          "Provider inventory is not proof of every string in the artifact.",
+      },
+      items: page.items.map((row) => ({
+        id: {
+          kind: "string",
+          address: row.address,
+          encoding: row.string?.encoding ?? null,
+        },
+        ...Object.fromEntries(
+          fields
+            .filter((key) => Object.hasOwn(row, key))
+            .map((key) => [key, row[key]]),
+        ),
+      })),
+    };
+  }
+
+  validContext(context) {
+    const current = this.port.context();
+    return context.ref === current.ref && context.lease === current.lease;
+  }
+
+  async incomingReferences({ context, targets, offset = 0, limit = 20 }) {
+    if (!this.validContext(context))
+      return failure(
+        "invalid_request",
+        "Fact context or session lease is stale; find facts again on the selected target.",
+      );
+    // Share duplicate targets within this batch. Native/session cache ownership
+    // remains with the provider; this layer adds no long-lived result cache.
+    const observations = new Map();
+    const results = [];
+    for (const target of targets) {
+      let observed = observations.get(target.address);
+      if (observed === undefined) {
+        observed = await this.port.observe("xrefs", {
+          address: target.address,
+        });
+        observations.set(target.address, observed);
+      }
+      if (!observed.ok) {
+        results.push({ target, status: "error", error: observed.error });
+        continue;
+      }
+      const evidence = observed.value;
+      const page = pageOf(evidence.normalized_result, offset, limit);
+      results.push({
+        target,
+        status: "ok",
+        scope: { kind: "exact-address", address: target.address },
+        ...source(evidence),
+        selection: page.selection,
+        coverage: {
+          status: "unknown",
+          reason:
+            "The existing xrefs contract does not carry reference completeness.",
+        },
+        items: page.items.map((address) => ({
+          from: { kind: "location", address },
+          to: { kind: "location", address: target.address },
+          kind: "unknown",
+          kind_reason: "The existing xrefs contract projects addresses only.",
+        })),
+      });
+    }
+    return {
+      status: results.every((row) => row.status === "ok") ? "ok" : "partial",
+      context: this.port.context(),
+      results,
+    };
+  }
+
+  async resolveFunctions({ context, locations }) {
+    if (!this.validContext(context))
+      return failure(
+        "invalid_request",
+        "Fact context or session lease is stale; find facts again on the selected target.",
+      );
+    if (!this.port.supports("resolve_containing_procedure"))
+      return {
+        status: locations.length === 0 ? "ok" : "partial",
+        context: this.port.context(),
+        results: locations.map((location) => ({
+          location,
+          status: "unknown",
+          error: {
+            code: "unsupported",
+            message:
+              "The selected provider does not advertise containing-procedure resolution.",
+          },
+        })),
+      };
+    const observations = new Map();
+    const results = [];
+    for (const location of locations) {
+      let observed = observations.get(location.address);
+      if (observed === undefined) {
+        observed = await this.port.observe("resolve_containing_procedure", {
+          address: location.address,
+        });
+        observations.set(location.address, observed);
+      }
+      results.push(
+        observed.ok
+          ? {
+              location,
+              status: "ok",
+              ...source(observed.value),
+              // Preserve the owner's complete tagged found/negative outcome.
+              resolution: observed.value.normalized_result,
+            }
+          : { location, status: "unknown", error: observed.error },
+      );
+    }
+    return {
+      status: results.every((row) => row.status === "ok") ? "ok" : "partial",
+      context: this.port.context(),
+      results,
+    };
+  }
+
+  async traceStringUses(input) {
+    const strings = await this.findStrings(input);
+    if (strings.status !== "ok") return strings;
+    const references = await this.incomingReferences({
+      context: strings.context,
+      targets: strings.items.map((row) => row.id),
+      offset: 0,
+      limit: input.reference_limit ?? 20,
+    });
+    if (references.status === "error") return references;
+    const locations = [
+      ...new Map(
+        references.results
+          .flatMap((row) => row.items ?? [])
+          .map((row) => [row.from.address, row.from]),
+      ).values(),
+    ];
+    const functions =
+      input.include_functions === false
+        ? null
+        : await this.resolveFunctions({ context: strings.context, locations });
+    return {
+      status:
+        references.status === "partial" || functions?.status === "partial"
+          ? "partial"
+          : "ok",
+      strings,
+      references,
+      functions,
+    };
+  }
+}

experiments/atomic-re-tools/facts.test.mjs

@@ -0,0 +1,160 @@
+import assert from "node:assert/strict";
+import test from "node:test";
+import { FactQueries, contextFor } from "./facts.mjs";
+
+const profile = {
+  digest: "p1",
+  provider: { id: "test", name: "Test", version: "1" },
+};
+const context = contextFor("artifact-a", profile, "lease-1");
+const evidence = (normalized_result) => ({
+  evidence_id: "ev:test",
+  confidence: "derived",
+  limitations: ["fixture coverage only"],
+  normalized_result,
+});
+const port = (observe, extra = {}) => ({
+  context: () => context,
+  supports: () => true,
+  observe,
+  ...extra,
+});
+const string = {
+  kind: "string",
+  address: "0x20000000000001",
+  encoding: "utf8",
+};
+
+test("artifact, profile and lease boundaries reject joins before invoking analysis", async () => {
+  let calls = 0;
+  const facts = new FactQueries(
+    port(async () => {
+      calls++;
+      throw new Error("must not run");
+    }),
+  );
+  for (const foreign of [
+    contextFor("artifact-b", profile, "lease-1"),
+    contextFor("artifact-a", { ...profile, digest: "p2" }, "lease-1"),
+    contextFor("artifact-a", profile, "lease-2"),
+  ]) {
+    assert.equal(
+      (await facts.incomingReferences({ context: foreign, targets: [string] }))
+        .status,
+      "error",
+    );
+    assert.equal(
+      (await facts.resolveFunctions({ context: foreign, locations: [] }))
+        .status,
+      "error",
+    );
+  }
+  assert.equal(calls, 0);
+  assert.equal(contextFor("artifact-a", profile, "lease-2").ref, context.ref);
+});
+
+test("partial batches retain good observations and exact failure reasons", async () => {
+  const cancelled = {
+    code: "cancelled",
+    message: "caller cancelled",
+    details: { stage: "native" },
+  };
+  const facts = new FactQueries(
+    port(async (_, parameters) =>
+      parameters.address === "0xbad"
+        ? { ok: false, error: cancelled }
+        : { ok: true, value: evidence(["0x20000000000002"]) },
+    ),
+  );
+  const result = await facts.incomingReferences({
+    context,
+    targets: [string, { ...string, address: "0xbad" }],
+  });
+  assert.equal(result.status, "partial");
+  assert.equal(result.results[0].items[0].from.address, "0x20000000000002");
+  assert.equal(result.results[0].items[0].kind, "unknown");
+  assert.deepEqual(result.results[1].error, cancelled);
+  assert.equal(result.results[0].coverage.status, "unknown");
+});
+
+test("duplicate point lookups share work without turning selectors into observed objects", async () => {
+  let calls = 0;
+  const facts = new FactQueries(
+    port(async () => {
+      calls++;
+      return { ok: true, value: evidence(["0x20"]) };
+    }),
+  );
+  const otherEncoding = { ...string, encoding: "utf16le" };
+  const result = await facts.incomingReferences({
+    context,
+    targets: [string, otherEncoding, string],
+  });
+  assert.equal(calls, 1);
+  assert.deepEqual(
+    result.results.map((row) => row.target),
+    [string, otherEncoding, string],
+  );
+  assert.deepEqual(
+    result.results.map((row) => row.items[0].to),
+    Array(3).fill({ kind: "location", address: string.address }),
+  );
+  assert.equal(result.results[0].scope.kind, "exact-address");
+});
+
+test("paging and field selection retain identities, source and unknown coverage", async () => {
+  const rows = [
+    {
+      address: string.address,
+      value: "😀 marker",
+      string: {
+        encoding: "utf8",
+        encoding_status: "observed",
+        byte_length: 12,
+      },
+    },
+    { address: "0x20000000000002", value: "other" },
+  ];
+  const facts = new FactQueries(
+    port(async () => ({ ok: true, value: evidence(rows) })),
+  );
+  const page = await facts.findStrings({
+    query: { pattern: "" },
+    limit: 1,
+    fields: ["string"],
+  });
+  assert.deepEqual(page.items, [{ id: string, string: rows[0].string }]);
+  assert.equal(page.selection.next_offset, 1);
+  assert.equal(page.evidence_id, "ev:test");
+  assert.equal(page.coverage.status, "unknown");
+  const beyond = await facts.findStrings({
+    query: { pattern: "" },
+    offset: 99,
+    limit: 1,
+  });
+  assert.equal(beyond.selection.matched, 2);
+  assert.equal(beyond.selection.returned, 0);
+  assert.equal(beyond.coverage.status, "unknown");
+});
+
+test("unsupported function resolution remains unknown without futile native calls", async () => {
+  const facts = new FactQueries(
+    port(
+      async () => {
+        throw new Error("unsupported capability must not run");
+      },
+      { supports: () => false },
+    ),
+  );
+  const result = await facts.resolveFunctions({
+    context,
+    locations: [{ kind: "location", address: "0x12" }],
+  });
+  assert.equal(result.status, "partial");
+  assert.equal(result.results[0].status, "unknown");
+  assert.equal(result.results[0].error.code, "unsupported");
+  assert.equal(
+    (await facts.resolveFunctions({ context, locations: [] })).status,
+    "ok",
+  );
+});

experiments/atomic-re-tools/interior-reference.c

@@ -0,0 +1,12 @@
+/* Static fixture: compile and inspect, never execute. The only reference into
+ * this string lands after its first byte. Point xrefs and object uses differ. */
+static const char marker[] = "HEAD:REA atomic interior-only marker";
+
+__attribute__((noinline)) const char *give_suffix(void) {
+  return marker + 5;
+}
+
+int main(int argc, char **argv) {
+  (void)argv;
+  return (unsigned char)*give_suffix() == (unsigned char)argc;
+}

experiments/atomic-re-tools/kuna-ssa.mjs

@@ -0,0 +1,300 @@
+// Decoder for the pinned 1.833 print_raw format, not a production Kuna API.
+// Relations come from native SSA annotations, never from reconstructed C text.
+import assert from "node:assert/strict";
+import { createHash } from "node:crypto";
+
+const pc = "0x[0-9a-f]{1,16}";
+const seq = `${pc}:[0-9a-f]{1,16}`;
+const operationLine = new RegExp(`^(${seq}):\\s+(.+)$`, "u");
+const blockLine = new RegExp(`^Basic Block (\\d+) (${pc})-(${pc})$`, "u");
+const definitionToken = new RegExp(`\\((${seq})\\)`, "gu");
+const constantToken = /#(0x[0-9a-f]{1,16})(?::(\d+))?(?![0-9a-f])/gu;
+const destination = `Block_(\\d+):(${pc})`;
+const conditional = new RegExp(
+  `^goto ${destination} if (.+) else ${destination}$`,
+  "u",
+);
+const direct = new RegExp(`^goto ${destination}$`, "u");
+const implied = new RegExp(`^(${pc}):\\s+\\[ goto ${destination} \\]$`, "u");
+const address = (value) => `0x${BigInt(value).toString(16)}`;
+const operationId = (value) => {
+  const [location, time] = value.split(":");
+  return `${address(location)}:${BigInt(`0x${time}`).toString(16)}`;
+};
+const indexInto = (index, key, row) => {
+  if (!index.has(key)) index.set(key, []);
+  index.get(key).push(row);
+};
+const ordinal = (value) => {
+  const n = Number(value);
+  assert.ok(Number.isSafeInteger(n) && n >= 0);
+  return n;
+};
+const freeze = (value) => {
+  if (value && typeof value === "object" && !Object.isFrozen(value)) {
+    Object.freeze(value);
+    for (const child of Object.values(value)) freeze(child);
+  }
+  return value;
+};
+const validateDefinitions = (operations, issues) => {
+  for (const row of operations.values()) {
+    for (const relation of row.definitions) {
+      if (!operations.has(relation.definition))
+        issues.push({
+          source_line: row.source_line,
+          reason: `Missing definition ${relation.definition}`,
+        });
+    }
+  }
+};
+
+const parseOperation = (match, blockId, sourceLine) => {
+  const id = operationId(match[1]);
+  const statement = match[2];
+  const split = statement.indexOf(" = ");
+  const lhs = split < 0 ? "" : statement.slice(0, split);
+  const rhs = split < 0 ? statement : statement.slice(split + 3);
+  const kind = lhs.startsWith("*(")
+    ? "store"
+    : rhs.startsWith("*(")
+      ? "load"
+      : rhs.startsWith("call ")
+        ? "call"
+        : statement.startsWith("goto ")
+          ? "branch"
+          : statement.startsWith("switch ")
+            ? "switch"
+            : statement.startsWith("return(")
+              ? "return"
+              : rhs.includes(" ? ")
+                ? "phi"
+                : "value";
+  // STORE's address is an input. An ordinary assignment's LHS is its output.
+  const inputText = kind === "store" ? statement : rhs;
+  const definitions = [...inputText.matchAll(definitionToken)].map(
+    (token, occurrence) => ({
+      definition: operationId(token[1]),
+      use: id,
+      occurrence,
+      // This is printed-varnode order, NOT a p-code input_index or phi predecessor.
+    }),
+  );
+  const literals = [...inputText.matchAll(constantToken)].map((token) => ({
+    value: address(token[1]),
+    printed_size_bytes: token[2] === undefined ? null : ordinal(token[2]),
+  }));
+  const row = {
+    id,
+    address: id.split(":")[0],
+    block: blockId,
+    kind,
+    statement,
+    definitions,
+    constants: literals,
+    source_line: sourceLine,
+  };
+  return row;
+};
+
+const controlEdges = (row) => {
+  const { statement } = row;
+  const edges = [];
+  const branch = conditional.exec(statement);
+  const jump = direct.exec(statement);
+  if (branch) {
+    for (const [target, targetAddress, polarity] of [
+      [branch[1], branch[2], "true"],
+      [branch[4], branch[5], "false"],
+    ]) {
+      edges.push({
+        from: row.block,
+        to: ordinal(target),
+        target_address: address(targetAddress),
+        kind: "conditional",
+        polarity,
+        predicate: branch[3],
+        operation: row.id,
+        source_line: row.source_line,
+      });
+    }
+  } else if (jump) {
+    edges.push({
+      from: row.block,
+      to: ordinal(jump[1]),
+      target_address: address(jump[2]),
+      kind: "direct",
+      operation: row.id,
+      source_line: row.source_line,
+    });
+  }
+  return edges;
+};
+
+const graphStart = (lines) => {
+  const first = lines.findIndex(
+    (line, i) => line.startsWith("Basic Block 0 ") && lines[i - 1] === "0",
+  );
+  assert.ok(first >= 0, "Missing native SSA block graph header");
+  return first;
+};
+export const parseKunaSsaDump = (text) => {
+  assert.ok(
+    Buffer.byteLength(text) <= 16 * 1024 * 1024,
+    "SSA dump exceeds capture budget",
+  );
+  const lines = text.split("\n");
+  // The CLI places C before the root block graph header. Ignore that C entirely.
+  const first = graphStart(lines);
+  const operations = new Map(),
+    blocks = new Map(),
+    constants = new Map();
+  const users = new Map(),
+    incoming = new Map(),
+    edges = [],
+    issues = [];
+  let block;
+  for (let i = first; i < lines.length; i++) {
+    const line = lines[i];
+    const header = blockLine.exec(line);
+    if (header) {
+      const id = ordinal(header[1]);
+      assert.ok(!blocks.has(id), "Duplicate block identity");
+      // Stop is the last instruction's address, NOT an exclusive byte bound.
+      block = {
+        id,
+        start: address(header[2]),
+        stop_instruction: address(header[3]),
+        operations: [],
+        source_line: i + 1,
+      };
+      blocks.set(id, block);
+      continue;
+    }
+    if (!line.trim()) continue;
+    const fallthrough = implied.exec(line);
+    if (fallthrough) {
+      edges.push({
+        from: block.id,
+        to: ordinal(fallthrough[2]),
+        target_address: address(fallthrough[3]),
+        kind: "printed-implied-goto",
+        operation: null,
+        source_line: i + 1,
+      });
+      continue;
+    }
+    const match = operationLine.exec(line);
+    if (!match) {
+      issues.push({
+        source_line: i + 1,
+        reason: "Unrecognized native dump line",
+      });
+      continue;
+    }
+    const row = parseOperation(match, block.id, i + 1);
+    assert.ok(!operations.has(row.id), "Duplicate operation identity");
+    operations.set(row.id, row);
+    block.operations.push(row.id);
+    for (const literal of new Set(row.constants.map((c) => c.value)))
+      indexInto(constants, literal, row.id);
+    for (const edge of row.definitions) indexInto(users, edge.definition, edge);
+    edges.push(...controlEdges(row));
+  }
+  validateDefinitions(operations, issues);
+  for (const edge of edges) {
+    assert.equal(
+      blocks.get(edge.to)?.start,
+      edge.target_address,
+      "Branch target identity mismatch",
+    );
+    indexInto(incoming, edge.to, edge);
+  }
+  const outgoing = new Set(edges.map((edge) => edge.from));
+  const unrepresented = [...blocks.values()]
+    .filter((b) => {
+      const tail = operations.get(b.operations.at(-1));
+      return tail?.kind !== "return" && !outgoing.has(b.id);
+    })
+    .map((b) => b.id);
+  const digest = createHash("sha256").update(text).digest("hex");
+  for (const table of [operations, blocks, constants, users, incoming])
+    for (const value of table.values()) freeze(value);
+  return freeze({
+    identity: { kind: "native-ssa-snapshot", sha256: digest },
+    coverage: {
+      scope: "printed-SSA",
+      operations: operations.size,
+      blocks: blocks.size,
+      explicit_control_edges: edges.length,
+      unrepresented_outgoing_blocks: unrepresented,
+      issues,
+      control_flow: "partial",
+      machine_semantic_equivalence: "unknown",
+    },
+    // The owner parses/indexes once; all compositions reuse the same facts.
+    operation: (id) => operations.get(id) ?? null,
+    block: (id) => blocks.get(id) ?? null,
+    findConstant: (value) => [...(constants.get(address(value)) ?? [])],
+    uses: (id) => users.get(id) ?? [],
+    incoming: (id) => incoming.get(id) ?? [],
+  });
+};
+
+// Dependency-closed only within the caller's selected budget and boundaries.
+export const backwardSlice = (
+  snapshot,
+  seeds,
+  { maxOperations = 48, stopAt = [], stopKinds = ["phi", "load"] } = {},
+) => {
+  assert.ok(Number.isSafeInteger(maxOperations) && maxOperations > 0);
+  const stopped = new Set(stopAt),
+    kinds = new Set(stopKinds);
+  const queue = [...new Set(seeds)],
+    queued = new Set(queue),
+    seen = new Set(),
+    selected = [],
+    boundaries = [],
+    missing = [];
+  for (let cursor = 0; cursor < queue.length; cursor++) {
+    const id = queue[cursor];
+    if (seen.has(id)) continue;
+    seen.add(id);
+    const row = snapshot.operation(id);
+    if (!row) {
+      missing.push(id);
+      continue;
+    }
+    if (selected.length >= maxOperations) {
+      boundaries.push({ id, reason: "operation-budget" });
+      continue;
+    }
+    selected.push(row);
+    if (stopped.has(id) || kinds.has(row.kind)) {
+      boundaries.push({
+        id,
+        reason: stopped.has(id) ? "caller-selected" : row.kind,
+      });
+    } else
+      for (const edge of row.definitions) {
+        if (!queued.has(edge.definition)) {
+          queue.push(edge.definition);
+          queued.add(edge.definition);
+        }
+      }
+  }
+  return {
+    operations: selected,
+    coverage: {
+      status:
+        boundaries.length || missing.length || snapshot.coverage.issues.length
+          ? "partial"
+          : "complete-for-printed-definitions",
+      boundaries,
+      missing,
+      source_issues: snapshot.coverage.issues.length,
+      runtime_reachability: "unknown",
+      memory_alias_dependencies: "unknown",
+    },
+  };
+};

experiments/atomic-re-tools/kuna-ssa.test.mjs

@@ -0,0 +1,120 @@
+import assert from "node:assert/strict";
+import test from "node:test";
+import { backwardSlice, parseKunaSsaDump } from "./kuna-ssa.mjs";
+import { queryLiteralUses } from "./query-ssa.mjs";
+
+// Minimal native print_raw syntax, including a STORE pointer on its LHS.
+const dump = `ignored C text
+0
+Basic Block 0 0x100-0x106
+0x100:1: r0(0x100:1) = #0xffffffffffffffff
+0x102:2: u0(0x102:2) = r0(0x100:1) != #0x0
+0x106:3: goto Block_1:0x110 if (u0(0x102:2) != 0) else Block_2:0x120
+Basic Block 1 0x110-0x114
+0x110:4: u1(0x110:4) = ->(RDI(i),#0x30)
+0x112:5: *(ram,u1(0x110:4)) = r0(0x100:1)
+0x114:6: return(#0x0)
+Basic Block 2 0x120-0x120
+0x120:7: switch r0(0x100:1)
+`;
+
+test("SSA definitions preserve STORE address dependencies, exact u64 and conditional polarity", () => {
+  const snapshot = parseKunaSsaDump(dump);
+  assert.deepEqual(snapshot.findConstant("0xffffffffffffffff"), ["0x100:1"]);
+  assert.deepEqual(
+    snapshot.operation("0x112:5").definitions.map((e) => e.definition),
+    ["0x110:4", "0x100:1"],
+  );
+  assert.equal(snapshot.operation("0x100:1").definitions.length, 0);
+  assert.deepEqual(
+    snapshot.incoming(1).map((e) => [e.from, e.polarity]),
+    [[0, "true"]],
+  );
+  assert.deepEqual(
+    snapshot.incoming(2).map((e) => [e.from, e.polarity]),
+    [[0, "false"]],
+  );
+  assert.deepEqual(snapshot.coverage.unrepresented_outgoing_blocks, [2]);
+  assert.equal(snapshot.coverage.control_flow, "partial");
+});
+
+test("a bounded slice names budget frontiers; graph cycles terminate", () => {
+  const snapshot = parseKunaSsaDump(dump);
+  const result = backwardSlice(snapshot, ["0x112:5"], { maxOperations: 1 });
+  assert.equal(result.operations.length, 1);
+  assert.equal(result.coverage.boundaries.length, 2);
+  assert.equal(result.coverage.status, "partial");
+  const cyclic = parseKunaSsaDump(
+    dump.replace("#0xffffffffffffffff", "r0(0x100:1)"),
+  );
+  assert.equal(backwardSlice(cyclic, ["0x100:1"]).operations.length, 1);
+});
+
+test("snapshot identity changes with source; malformed and missing facts cannot look complete", () => {
+  assert.notEqual(
+    parseKunaSsaDump(dump).identity.sha256,
+    parseKunaSsaDump(dump + "unknown native line\n").identity.sha256,
+  );
+  assert.equal(
+    parseKunaSsaDump(dump + "unknown native line\n").coverage.issues.length,
+    1,
+  );
+  assert.throws(
+    () => parseKunaSsaDump(dump.replace("Block_1:0x110", "Block_1:0x111")),
+    /identity mismatch/u,
+  );
+  assert.throws(
+    () => parseKunaSsaDump(dump.replace("0x112:5:", "0x100:1:")),
+    /Duplicate operation/u,
+  );
+  const missing = parseKunaSsaDump(
+    dump.replace("r0(0x100:1) !=", "r0(0xff:9) !="),
+  );
+  assert.equal(missing.coverage.issues.length, 1);
+  assert.deepEqual(backwardSlice(missing, ["0x102:2"]).coverage.missing, [
+    "0xff:9",
+  ]);
+});
+
+test("phi/load cutoffs preserve boundary rows and do not invent memory or predecessor bindings", () => {
+  const snapshot = parseKunaSsaDump(
+    dump.replace("r0(0x100:1) != #0x0", "r0(0x100:1) ? r0(0x100:1)"),
+  );
+  const result = backwardSlice(snapshot, ["0x102:2"]);
+  assert.deepEqual(result.coverage.boundaries, [
+    { id: "0x102:2", reason: "phi" },
+  ]);
+  assert.equal(result.operations.length, 1);
+  assert.equal(result.operations[0].definitions.length, 2);
+  assert.equal(result.coverage.memory_alias_dependencies, "unknown");
+});
+
+test("cloned blocks share starts; operation identity includes sequence, and facts stay immutable", () => {
+  const snapshot = parseKunaSsaDump(dump.replaceAll("0x120", "0x110"));
+  assert.equal(snapshot.block(1).start, snapshot.block(2).start);
+  assert.notEqual(snapshot.block(1).id, snapshot.block(2).id);
+  assert.throws(() => {
+    snapshot.operation("0x100:1").kind = "store";
+  }, TypeError);
+  assert.throws(() => snapshot.uses("0x100:1").pop(), TypeError);
+  const query = queryLiteralUses(snapshot, "0xffffffffffffffff");
+  assert.deepEqual(query.constant_operations, ["0x100:1"]);
+  assert.ok(query.direct_uses.includes("0x112:5"));
+  assert.equal(query.coverage.control_flow, "partial");
+});
+
+test("a literal directly in STORE is itself an effect seed; shared block edges are returned once", () => {
+  const snapshot = parseKunaSsaDump(
+    dump.replace(
+      "*(ram,u1(0x110:4)) = r0(0x100:1)",
+      "*(ram,u1(0x110:4)) = #0x20",
+    ),
+  );
+  const query = queryLiteralUses(snapshot, "0x20");
+  assert.deepEqual(query.effect_seed_operations, ["0x112:5"]);
+  assert.deepEqual(
+    query.control_edges.map((e) => e.operation),
+    ["0x106:3"],
+  );
+  assert.ok(query.operations.some((row) => row.id === "0x102:2"));
+});

experiments/atomic-re-tools/mapped-code.mjs

@@ -0,0 +1,121 @@
+// A view over native printer-to-instruction mappings, never a C-text parser.
+import assert from "node:assert/strict";
+import { z } from "zod";
+
+const mapping = z.object({
+  line_number: z.number().int().positive(),
+  addresses: z.array(z.number().nonnegative()),
+});
+const documentSchema = z.object({
+  binary: z.string(),
+  count: z.number().int().nonnegative(),
+  functions: z.array(
+    z.object({
+      address_hex: z.string(),
+      address: z.number().nonnegative(),
+      code: z.string().nullable(),
+      error: z.string().nullable(),
+      line_mappings: z.array(mapping).optional(),
+    }),
+  ),
+});
+
+export const mappedCode = async (native, reference, contextLines = 16) => {
+  if (reference.functions.length !== 1 || !Array.isArray(reference.sites))
+    return {
+      status: "unknown",
+      reason:
+        "A unique native owning function and exact reference sites are required.",
+    };
+  const entry = reference.functions[0].address;
+  const snapshot = await native((input) => [
+    "decompile",
+    input,
+    entry,
+    "--addr",
+    "--json",
+    "--max-fn-memory",
+    "1024",
+  ]);
+  const document = documentSchema.parse(JSON.parse(snapshot.stdout.text));
+  assert.equal(document.binary, snapshot.input);
+  assert.equal(document.count, document.functions.length);
+  const candidates = document.functions.filter(
+    (row) => row.address_hex === entry,
+  );
+  const fn = candidates.length === 1 ? candidates[0] : undefined;
+  if (fn === undefined || fn.code === null || fn.line_mappings === undefined)
+    return {
+      status: "unknown",
+      reason:
+        "Native decompilation did not supply a body with instruction-to-line mappings.",
+      native_error: fn?.error ?? null,
+    };
+  // This low-VMA experiment rejects unsafe numeric arrays, rather than rounding
+  // u64 addresses. General u64 array support would need the owning JSON parser.
+  if (
+    !Number.isSafeInteger(fn.address) ||
+    `0x${fn.address.toString(16)}` !== entry ||
+    fn.line_mappings.some((row) =>
+      row.addresses.some((value) => !Number.isSafeInteger(value)),
+    )
+  )
+    return {
+      status: "unknown",
+      reason:
+        "Instruction mapping contains an address outside this prototype's exact safe-integer coverage.",
+    };
+  const sites = new Set(reference.sites.map((row) => row.from));
+  const hits = fn.line_mappings.filter((row) =>
+    row.addresses.some((value) => sites.has(`0x${value.toString(16)}`)),
+  );
+  const mappedSites = new Set(
+    hits.flatMap((row) =>
+      row.addresses.map((value) => `0x${value.toString(16)}`),
+    ),
+  );
+  const unmappedSites = [...sites].filter((site) => !mappedSites.has(site));
+  const lines = fn.code.split("\n");
+  for (const hit of hits) assert.ok(hit.line_number <= lines.length);
+  if (!hits.length)
+    return {
+      status: "unknown",
+      reason:
+        "No exact reference site maps to an emitted line; nearest-line guessing is disabled.",
+    };
+  const ranges = hits.map((hit) => ({
+    start_line: Math.max(1, hit.line_number - contextLines),
+    end_line: Math.min(lines.length, hit.line_number + contextLines),
+  }));
+  const slices = [];
+  for (const range of ranges.sort((a, b) => a.start_line - b.start_line)) {
+    const previous = slices.at(-1);
+    if (previous !== undefined && range.start_line <= previous.end_line + 1)
+      previous.end_line = Math.max(previous.end_line, range.end_line);
+    else slices.push({ ...range });
+  }
+  return {
+    status: unmappedSites.length || fn.error !== null ? "partial" : "ok",
+    native_error: fn.error,
+    entry,
+    reference_sites: [...sites],
+    unmapped_reference_sites: unmappedSites,
+    exact_mapped_lines: hits.map((row) => row.line_number),
+    total_lines: lines.length,
+    total_characters: fn.code.length,
+    slices: slices.map((range) => ({
+      ...range,
+      text: lines.slice(range.start_line - 1, range.end_line).join("\n"),
+    })),
+    coverage: {
+      status: "partial",
+      reason:
+        "Selected text around exact mapped sites; not a proof that every relevant guard or data dependency is included.",
+    },
+    limitations: [
+      "Single-function engine reconstruction, not original source.",
+      "Printer line mappings are derived and do not prove runtime reachability.",
+      "Complete native body and mappings remain in the retained source document.",
+    ],
+  };
+};

experiments/atomic-re-tools/mapped-code.test.mjs

@@ -0,0 +1,56 @@
+import assert from "node:assert/strict";
+import test from "node:test";
+import { mappedCode } from "./mapped-code.mjs";
+
+const reference = {
+  functions: [{ address: "0x1000" }],
+  sites: [{ from: "0x2000" }, { from: "0x2001" }],
+};
+const document = () => ({
+  binary: "/private/input",
+  count: 1,
+  functions: [
+    {
+      address: 4096,
+      address_hex: "0x1000",
+      code: "one\ntwo\nthree\nfour\nfive",
+      error: null,
+      line_mappings: [{ line_number: 3, addresses: [8192] }],
+    },
+  ],
+});
+const native = (value) => async () => ({
+  input: "/private/input",
+  stdout: { text: JSON.stringify(value) },
+});
+
+test("a mapped subset names unmapped sites instead of implying complete mapping", async () => {
+  const result = await mappedCode(native(document()), reference, 1);
+  assert.equal(result.status, "partial");
+  assert.deepEqual(result.unmapped_reference_sites, ["0x2001"]);
+  assert.deepEqual(result.slices, [
+    { start_line: 2, end_line: 4, text: "two\nthree\nfour" },
+  ]);
+  assert.equal(result.coverage.status, "partial");
+});
+
+test("unmapped locations never select a nearby printed line", async () => {
+  const result = await mappedCode(native(document()), {
+    ...reference,
+    sites: [{ from: "0x1fff" }],
+  });
+  assert.equal(result.status, "unknown");
+});
+
+test("unsafe numeric address arrays stay unknown without lossy conversion", async () => {
+  const value = document();
+  value.functions[0].line_mappings[0].addresses = [Number.MAX_SAFE_INTEGER + 1];
+  const result = await mappedCode(native(value), reference);
+  assert.equal(result.status, "unknown");
+});
+
+test("malformed line locations reject the view before publishing fragments", async () => {
+  const value = document();
+  value.functions[0].line_mappings[0].line_number = 99;
+  await assert.rejects(mappedCode(native(value), reference));
+});

experiments/atomic-re-tools/native-relations.mjs

@@ -0,0 +1,274 @@
+// Native-boundary experiment, not MCP and not a production provider extension.
+import assert from "node:assert/strict";
+import { createHash } from "node:crypto";
+import { mkdir, writeFile } from "node:fs/promises";
+import { dirname, resolve } from "node:path";
+import { z } from "zod";
+import { AnalysisError } from "../../dist/domain/analysisErrorBase.js";
+import { projectAnalysisError } from "../../dist/domain/analysisErrorProjection.js";
+import { mappedCode } from "./mapped-code.mjs";
+import { parseBinaryTarget } from "../../dist/application/BinaryTargetResolver.js";
+import { inspectKunaInstallation } from "../../dist/kuna/KunaInstallation.js";
+import { KunaTargetCommands } from "../../dist/kuna/KunaTargetCommands.js";
+import { parseKunaJson } from "../../dist/kuna/KunaJson.js";
+import { parseKunaStringInventory } from "../../dist/kuna/KunaStringInventory.js";
+import { parseKunaIncomingReferenceFacts } from "../../dist/kuna/KunaReferenceFiles.js";
+import {
+  createVerifierRun,
+  completeVerifierRun,
+  assertVerifierCleanupComplete,
+} from "../../scripts/lib/verifier-run.mjs";
+
+const [binary, pattern, variant, prefix, codeOption] = process.argv.slice(2);
+assert.ok(binary && pattern && prefix);
+assert.ok(["per-address", "inventory"].includes(variant));
+await mkdir(dirname(prefix), { recursive: true });
+const verifier = createVerifierRun();
+const lifetime = new AbortController();
+const parsed = await parseBinaryTarget(binary);
+assert.ok(parsed.ok);
+const installed = await inspectKunaInstallation({
+  ...process.env,
+  REA_KUNA_CACHE_DIR: resolve(`${prefix}.cache`),
+});
+assert.ok(installed.ok);
+const commands = new KunaTargetCommands(parsed.value, {
+  signal: lifetime.signal,
+});
+const address = z.string().regex(/^0x(?:0|[1-9a-f][0-9a-f]{0,15})$/u);
+const functionSchema = z.object({
+  name: z.string(),
+  address,
+  address_hex: address,
+});
+const relatedRow = z.object({
+  address,
+  address_hex: address,
+  text: z.string(),
+  length: z.number().int().nonnegative(),
+  encoding: z.string(),
+  byte_length: z.number().int().nonnegative(),
+  nul_terminated: z.boolean(),
+  xrefs_count: z.number().int().nonnegative(),
+  functions: z.array(functionSchema),
+});
+const sourceKeys = new Set(["address", "from_address", "to_address"]);
+const limit = 16 * 1024 * 1024;
+const calls = [],
+  failures = [];
+let facts;
+const native = async (arguments_) => {
+  const start = performance.now();
+  const outcome = await commands.run({
+    installation: installed.value,
+    operation: "experiment:native-relations",
+    arguments: arguments_,
+    outputBytes: limit,
+    timeoutMs: 120000,
+    signal: lifetime.signal,
+  });
+  if (!outcome.ok) throw outcome.error;
+  const snapshot = outcome.value;
+  const file = `${prefix}.native-${calls.length}.json`;
+  await writeFile(file, snapshot.stdout.text);
+  calls.push({
+    elapsed_ms: performance.now() - start,
+    file,
+    arguments: arguments_(snapshot.input),
+    sha256: createHash("sha256").update(snapshot.stdout.text).digest("hex"),
+    bytes: Buffer.byteLength(snapshot.stdout.text),
+  });
+  return snapshot;
+};
+try {
+  // Common producer: validate all string facts once through the existing owner.
+  const scan = await native((input) => [
+    "strings",
+    input,
+    "--json",
+    "--encoding",
+    "all",
+    "--min-length",
+    "5",
+    "--termination",
+    "any",
+    "--no-xrefs",
+  ]);
+  const inventory = parseKunaStringInventory(scan.stdout.text, scan.input);
+  assert.ok(inventory.ok, inventory.error);
+  const selected = inventory.value.items
+    .filter((row) => row.value.includes(pattern))
+    .slice(0, 3);
+  assert.ok(selected.length > 0);
+  const results = [];
+  if (variant === "per-address") {
+    for (const item of selected) {
+      const result = await native((input) => [
+        "xrefs",
+        input,
+        "--to",
+        item.address,
+        "--json",
+      ]);
+      // Consume the owning parser's facts, without reinterpreting raw JSON.
+      const validated = parseKunaIncomingReferenceFacts(
+        result.stdout.text,
+        result.input,
+        item.address,
+      );
+      assert.ok(validated.ok, validated.error);
+      const rows = validated.value.facts;
+      const functions = [
+        ...new Map(
+          rows
+            .flatMap((row) =>
+              row.fromFunction === null ? [] : [row.fromFunction],
+            )
+            .map((fn) => [fn.address, fn]),
+        ).values(),
+      ];
+      results.push({
+        string: item,
+        scope: "exact-start-address",
+        xrefs_count: rows.length,
+        functions,
+        sites: rows.map((row) => ({
+          from: row.from,
+          to: row.to,
+          kind: row.kind,
+          instruction: row.instruction,
+        })),
+        source: calls.at(-1),
+      });
+    }
+  } else {
+    const result = await native((input) => [
+      "strings",
+      input,
+      "--json",
+      "--encoding",
+      "all",
+      "--min-length",
+      "5",
+      "--termination",
+      "any",
+    ]);
+    const document = parseKunaJson(result.stdout.text, limit, sourceKeys);
+    assert.equal(document.binary, result.input);
+    assert.equal(document.xrefs, true);
+    assert.equal(document.encoding, "all");
+    assert.equal(document.min_length, 5);
+    assert.equal(document.termination, "any");
+    assert.equal(document.filter, null);
+    assert.equal(document.section, null);
+    assert.equal(document.scanned, inventory.value.scanned);
+    assert.equal(document.count, document.strings.length);
+    assert.equal(document.count, inventory.value.items.length);
+    const known = new Map(
+      inventory.value.items.map((row) => [
+        `${row.address}|${row.string.encoding}`,
+        row,
+      ]),
+    );
+    const examined = new Map();
+    for (const value of document.strings) {
+      const row = relatedRow.parse(value);
+      assert.equal(row.address, row.address_hex);
+      const key = `${row.address}|${row.encoding}`;
+      assert.ok(!examined.has(key));
+      const expected = known.get(key);
+      assert.ok(expected);
+      assert.equal(row.text, expected.value);
+      assert.equal(row.length, [...expected.value].length);
+      assert.equal(row.byte_length, expected.string.byte_length);
+      assert.equal(
+        row.nul_terminated,
+        expected.string.termination === "present_or_not_required",
+      );
+      const entries = new Set();
+      for (const fn of row.functions) {
+        assert.equal(fn.address, fn.address_hex);
+        assert.ok(!entries.has(fn.address));
+        entries.add(fn.address);
+      }
+      assert.ok(row.functions.length <= row.xrefs_count);
+      examined.set(key, row);
+    }
+    for (const item of selected) {
+      const row = examined.get(`${item.address}|${item.string.encoding}`);
+      results.push({
+        string: item,
+        scope: "any-byte-in-string-extent",
+        xrefs_count: row.xrefs_count,
+        functions: row.functions,
+        sites: {
+          status: "unknown",
+          reason:
+            "Native string attribution does not return reference sites or kinds.",
+        },
+        source: calls.at(-1),
+      });
+    }
+  }
+  const code =
+    codeOption === "--code-slice" ? await mappedCode(native, results[0]) : null;
+  facts = {
+    artifact_sha256: parsed.value.sha256,
+    engine: {
+      version: installed.value.version,
+      sha256: installed.value.sha256,
+    },
+    inventory_count: inventory.value.items.length,
+    selected_count: selected.length,
+    results,
+    mapped_code: code === null ? null : { ...code, source: calls.at(-1) },
+    limitations: [
+      "These are native derived static references, not runtime uses.",
+      "The per-address and inventory scopes differ; their timings do not establish equivalent-query speedup.",
+      "An empty function set can mean unowned references, not that a string is unused.",
+      "Complete native source documents are retained locally by file and SHA-256; this is not an MCP token measurement.",
+    ],
+  };
+} catch (error) {
+  failures.push(
+    error instanceof AnalysisError
+      ? projectAnalysisError(error)
+      : { message: String(error), stack: error.stack ?? null },
+  );
+}
+lifetime.abort();
+const closed = await commands.close();
+if (!closed.ok) failures.push(String(closed.error));
+const lifecycle = await completeVerifierRun(verifier);
+try {
+  assertVerifierCleanupComplete(lifecycle.process_lineage);
+} catch (error) {
+  failures.push(String(error));
+}
+await writeFile(
+  `${prefix}.report.json`,
+  JSON.stringify(
+    {
+      variant,
+      binary: resolve(binary),
+      pattern,
+      calls,
+      facts,
+      failures,
+      lifecycle,
+    },
+    null,
+    2,
+  ),
+);
+console.log(
+  JSON.stringify({
+    variant,
+    native_commands: calls.length,
+    native_ms: calls.reduce((sum, row) => sum + row.elapsed_ms, 0),
+    selected: facts?.selected_count,
+    owners: facts?.results.map((row) => row.functions.length),
+    failures,
+  }),
+);
+assert.deepEqual(failures, []);

experiments/atomic-re-tools/query-ssa.mjs

@@ -0,0 +1,168 @@
+// A composition over one validated, immutable snapshot; no new engine work.
+import assert from "node:assert/strict";
+import { createHash } from "node:crypto";
+import { readFile, writeFile } from "node:fs/promises";
+import { pathToFileURL } from "node:url";
+import { backwardSlice, parseKunaSsaDump } from "./kuna-ssa.mjs";
+import { assertVerifierCleanupComplete } from "../../scripts/lib/verifier-run.mjs";
+
+export const queryLiteralUses = (snapshot, literal, maxOperations = 48) => {
+  const allSeeds = snapshot.findConstant(literal);
+  const seeds = allSeeds.slice(0, 16);
+  const effectSeeds = seeds.filter((id) =>
+    ["store", "call"].includes(snapshot.operation(id).kind),
+  );
+  const allUses = [
+    ...new Set([
+      ...effectSeeds,
+      ...seeds.flatMap((id) => snapshot.uses(id).map((e) => e.use)),
+    ]),
+  ];
+  const selectedUses = allUses.slice(0, 16);
+  const consumers = selectedUses.map((id) => snapshot.operation(id));
+  const controlEdges = [
+    ...new Map(
+      consumers
+        .flatMap((row) => snapshot.incoming(row.block))
+        .map((edge) => [
+          JSON.stringify([edge.from, edge.to, edge.operation, edge.polarity]),
+          edge,
+        ]),
+    ).values(),
+  ];
+  const branchIds = [
+    ...new Set(
+      controlEdges.flatMap((edge) =>
+        edge.operation === null ? [] : [edge.operation],
+      ),
+    ),
+  ];
+  const guards = backwardSlice(snapshot, branchIds, { maxOperations });
+  const facts = [
+    ...new Map(
+      [
+        ...seeds.map((id) => snapshot.operation(id)),
+        ...consumers,
+        ...guards.operations,
+      ].map((row) => [row.id, row]),
+    ).values(),
+  ];
+  const selected = new Set(facts.map((row) => row.id));
+  return {
+    literal,
+    snapshot: snapshot.identity,
+    constant_operations: seeds,
+    effect_seed_operations: effectSeeds,
+    direct_uses: selectedUses,
+    control_edges: controlEdges,
+    operations: facts,
+    coverage: {
+      status: "partial",
+      seed_matches: allSeeds.length,
+      omitted_seed_matches: allSeeds.length - seeds.length,
+      omitted_direct_uses: allUses.length - selectedUses.length,
+      dependencies: guards.coverage,
+      unexpanded_definition_ids: [
+        ...new Set(
+          facts.flatMap((row) =>
+            row.definitions
+              .filter((edge) => !selected.has(edge.definition))
+              .map((edge) => edge.definition),
+          ),
+        ),
+      ],
+      control_flow: snapshot.coverage.control_flow,
+      unrepresented_outgoing_blocks:
+        snapshot.coverage.unrepresented_outgoing_blocks.length,
+      source_issues: snapshot.coverage.issues.length,
+      scope:
+        "literal equality, effect seeds and direct printed uses, their explicit incoming edges and bounded branch definitions",
+      address_object_identity: "unknown",
+      call_argument_bindings: "unknown",
+    },
+  };
+};
+
+const sha256 = (value) => createHash("sha256").update(value).digest("hex");
+const main = async () => {
+  const [prefix, values, output] = process.argv.slice(2);
+  assert.ok(prefix && values && output);
+  const literals = values.split(",");
+  assert.ok(
+    literals.length <= 16 &&
+      literals.every((s) => /^0x[0-9a-f]{1,16}$/u.test(s)),
+  );
+  const report = JSON.parse(await readFile(`${prefix}.report.json`, "utf8"));
+  assert.equal(report.view, "raw");
+  assert.deepEqual(report.failures, []);
+  assert.equal(report.calls.length, 1);
+  assert.equal(
+    report.engine.version,
+    "1.833",
+    "Decoder is pinned to the inspected printer format",
+  );
+  assertVerifierCleanupComplete(report.lifecycle.process_lineage);
+  const source = report.calls[0];
+  const raw = await readFile(source.file, "utf8");
+  assert.equal(sha256(raw), source.sha256);
+  assert.equal(Buffer.byteLength(raw), source.bytes);
+  assert.equal(
+    sha256(await readFile(report.binary)),
+    report.target_sha256,
+    "Artifact changed since capture",
+  );
+  const start = performance.now();
+  const snapshot = parseKunaSsaDump(raw);
+  const parseIndexMs = performance.now() - start;
+  const runs = [];
+  for (const phase of ["first-projection", "reused-index"]) {
+    const before = performance.now();
+    const answers = literals.map((literal) =>
+      queryLiteralUses(snapshot, literal),
+    );
+    const serialized = JSON.stringify(answers);
+    runs.push({
+      phase,
+      query_and_serialization_ms: performance.now() - before,
+      answers,
+      serialized_bytes: Buffer.byteLength(serialized),
+    });
+  }
+  assert.deepEqual(runs[0].answers, runs[1].answers);
+  await writeFile(
+    output,
+    JSON.stringify(
+      {
+        source: {
+          artifact_sha256: report.target_sha256,
+          engine: report.engine,
+          procedure: report.procedure,
+          capture_report: `${prefix}.report.json`,
+          raw: source,
+          profile:
+            "one-function native decompile defaults + --raw; no annotations",
+        },
+        parse_index_ms: parseIndexMs,
+        coverage: snapshot.coverage,
+        runs,
+        lifetime:
+          "One local process; validated immutable snapshot reused without native analysis. No cross-session cache.",
+      },
+      null,
+      2,
+    ),
+    { flag: "wx" },
+  );
+  console.log(
+    JSON.stringify({
+      output,
+      parse_index_ms: parseIndexMs,
+      runs: runs.map(({ answers, ...timing }) => ({
+        ...timing,
+        selected_operations: answers.map((a) => a.operations.length),
+      })),
+    }),
+  );
+};
+if (process.argv[1] && import.meta.url === pathToFileURL(process.argv[1]).href)
+  await main();

experiments/atomic-re-tools/relations.md

@@ -0,0 +1,239 @@
+# Control-flow and definition/use experiment
+
+This continues the first-round experiment on the same REA source baseline and
+Kuna 1.833. It is an exploratory native-boundary decoder, not a production
+provider capability or a new MCP catalog. No PR or merge is intended.
+
+The analyst questions are which local conditions lead to zlib's
+`incorrect header check` assignment and SQLite's
+`malformed MATCH expression: [%s]` error-formatting call. Runtime reachability,
+memory aliasing, phi predecessor bindings and complete entry-state conditions
+remain unknown. These are not controlled agent trials.
+
+`capture-function.mjs` records the existing public MCP function dossier. It
+preserves transport-budget failures and follows retained Evidence for a value-flow
+summary, then exports the complete local Evidence bundle before closing.
+`capture-kuna-structure.mjs` uses REA's existing target/process owners to capture
+the native `--raw`, `--regions` or disassembly output. All target inspection is
+static. The engine and artifact digests, command arguments, raw digest and cleanup
+proof are retained locally.
+
+`kuna-ssa.mjs` owns the decoder for the inspected 1.833 SSA diagnostic format.
+It indexes explicit definition annotations, literal values, block membership and
+printed branch destinations once. Immutable rows carry native source lines;
+operation and block IDs are local to the content-digested snapshot. A block's
+printed stop is an instruction address, not an exclusive extent. Blocks can share
+start addresses. Unknown lines, omitted outgoing relationships, missing definitions
+and traversal boundaries remain explicit. Printed operand occurrences do not
+claim p-code input indexes or phi-to-predecessor bindings.
+
+`query-ssa.mjs` composes literal equality, direct uses, incoming explicit edges
+and bounded backward definitions. It validates the retained capture against its
+digest and the current artifact before indexing. It retains complete native
+evidence; its local cache lives for one process. Default phi/load boundaries avoid
+expanding the whole program state. Selection limits report omissions.
+
+Use the pinned Node from `.nvmrc`, an existing build and caller-supplied Kuna:
+
+```sh
+node --test experiments/atomic-re-tools/kuna-ssa.test.mjs
+python3 experiments/analysis-efficiency/resource-run.py --observe-payload-exit -- \
+  node experiments/atomic-re-tools/capture-kuna-structure.mjs \
+  /usr/lib/x86_64-linux-gnu/libz.so.1 0xc1e0 raw .cache/atomic-re-tools/relations-zlib
+python3 experiments/analysis-efficiency/resource-run.py --observe-payload-exit -- \
+  node experiments/atomic-re-tools/query-ssa.mjs .cache/atomic-re-tools/relations-zlib \
+  0x18fc4 .cache/atomic-re-tools/relations-zlib-query.json
+```
+
+The addresses above apply only to the exact zlib artifact in [results](results.md).
+Do not reuse them across provider load spaces or binary versions. Complete
+measurement and validation notes follow below.
+
+## Observed results
+
+The same artifact and engine digests as [round one](results.md) apply. This is
+the existing experiment, not a newly rebased feature branch: newer REA main
+`42fc6c53ae188978deb3bedfe88287b6b316ba22` was fetched for inspection, but these
+runs retain baseline `5b16f2431062eea6ffd245a9e05512790007cb13` and Kuna 1.833.
+The source decoder was checked against Kuna's pinned
+[SSA renderer](https://github.com/Noelo-Lab/kuna/blob/fe01d6294eb0d1053ce343c8943646df88e143fc/decompiler/crates/kuna-decomp/src/substrate/funcdata_printraw.rs).
+No newer Kuna version was tested.
+
+1. **SSA value origins repair all three failed zlib mappings.** The original
+   string xrefs are LEAs whose addresses do not appear in printer mappings.
+   Literal equality in optimized SSA finds a pointer-valued operation; its
+   explicit def-use points to a STORE at a different instruction origin. Those
+   origins do appear in the retained JSON line mappings:
+
+   | String address | Original LEA | STORE origin | Exact emitted line |
+   | -------------- | ------------ | ------------ | -----------------: |
+   | `0x18fc4`      | `0xded7`     | `0xdee6`     |                164 |
+   | `0x19003`      | `0xdc6a`     | `0xdc74`     |                551 |
+   | `0x19018`      | `0xcd05`     | `0xcd0f`     |                653 |
+
+   The independently captured raw-mode C and JSON-mode C are byte-equal after
+   removing outer whitespace. The verifier checks both retained source digests,
+   artifact and engine equality before joining instruction origins. This is
+   corroboration between two captures, not proof of a shared internal IR revision.
+   A production interface should export these relationships together.
+
+2. **Control and def-use answer a bounded local question.** For the header error,
+   the result contains 21 operations: the literal origin, STORE and 19 branch
+   dependencies. Two explicit incoming edges enter block 446. They correspond
+   to a missing low wrap bit and a failed divisibility check on the constructed
+   header value. The branch definitions stop at a memory load and a phi node.
+   Original machine instructions independently show `test $1` / `je` and the
+   reciprocal-division sequence / `jne` into the error block. The verifier
+   exhaustively checks all 65,536 ordinary 16-bit header values against both
+   the captured arithmetic sequence and modulo 31. No target code is executed.
+   This agrees with [zlib 1.2.13 source](https://github.com/madler/zlib/blob/v1.2.13/inflate.c#L633)
+   and [RFC 1950](https://www.rfc-editor.org/rfc/rfc1950.html#section-2.2).
+   It does not establish all entry-state preconditions or primed bit-buffer states.
+
+3. **The same composition finds a SQLite call guard.** For the first malformed
+   MATCH string at `0x11dcd8`, five selected operations connect the literal to
+   `sqlite3Fts3ErrMsg` and the observed condition `EBX == 1`. The original bytes
+   have `cmp $1,%ebx` and `je` to the formatting path; the corresponding
+   [3.40.1 source](https://github.com/sqlite/sqlite/blob/version-3.40.1/ext/fts3/fts3_expr.c#L1057)
+   uses `rc == SQLITE_ERROR`, whose [code is 1](https://www.sqlite.org/rescode.html#error).
+   The slice stops at the return-code phi: it does not explain why a particular
+   input caused the parser error. Source-version agreement is corroboration,
+   not proof of an exact Debian source/build match.
+
+4. **Addresses do not identify IR blocks.** SQLite blocks 20 and 22 both start at
+   `0x6523e`, yet have distinct identities and paths. Several operations also
+   share instruction origins. Do not use a block's printed address span as its
+   membership set, or pair phi inputs with CFG predecessors by printed order.
+
+5. **Retained paging cannot recover producer omissions.** Ghidra `inflate` by
+   name is ambiguous between PLT and body. Its exact body is `0x10c1e0`, in a
+   different load space from Kuna's `0xc1e0`. The complete MCP dossier exceeded
+   the 10 MiB transport budget. The server correctly retained Evidence and
+   supplied continuation arguments; summary reads and local bundle export worked.
+   However, high p-code was already truncated to 3,000 operations, with 239 known
+   omitted edges and at least one omitted operation. The late error literal is
+   outside that prefix. Its absence remains **unknown**. Raising the response
+   limit or paging the retained prefix would not repair this missing coverage.
+
+Kuna's raw dump contains 3,860 operations / 472 blocks for `inflate`, and
+253 operations / 23 blocks for the SQLite function. All printed definition IDs
+resolved in these captures. Nevertheless, 63 / 1 blocks respectively have
+unrepresented outgoing relationships. In particular, the diagnostic format does
+not enumerate switch successors or every layout fallthrough. Incoming edges are
+local observations, not a complete control-dependence or feasible-path proof.
+`--regions` exposes structuring output; it did not provide the missing typed CFG.
+
+## Cost and limits of the comparison
+
+The estimates below use tiktoken 0.14.0 / `o200k_base`, not bytes-to-token ratios.
+Full C is native text; the selected answer is JSON including source identity,
+raw-Evidence access, facts and unknown coverage. No hypothetical MCP wrapper is
+counted. These are **representation costs**, not equivalent completed agent tasks.
+
+| Target / question  | Full C tokens | Full raw C + SSA tokens | Selected answer tokens |
+| ------------------ | ------------: | ----------------------: | ---------------------: |
+| zlib header error  |        17,726 |                 254,265 |                  3,270 |
+| SQLite MATCH error |           931 |                  14,928 |                  1,283 |
+
+The three zlib answers together cost 5,485 tokens with one shared source envelope.
+The SQLite counterexample matters: a small function is cheaper as complete C than
+as this structured slice. A successful atomic API does not force tiny getters or
+graph output for every question. A C window around zlib line 164, on the other
+hand, still misses the earlier guard at lines 122–124; locating a line alone did
+not complete the local explanation.
+
+| Stage                                                      | Elapsed s | Family CPU s | Peak family MiB |
+| ---------------------------------------------------------- | --------: | -----------: | --------------: |
+| zlib native raw, first capture                             |     6.965 |        6.608 |           208.1 |
+| zlib native raw, fresh repeat                              |    18.749 |       13.462 |           195.9 |
+| SQLite native raw                                          |     2.738 |        2.557 |           172.5 |
+| zlib validation, index and two projections                 |     0.423 |        0.227 |            43.7 |
+| SQLite validation, index and two projections               |     0.322 |        0.095 |            24.9 |
+| Ghidra exact selection, retained summary / bundle workflow |    49.170 |       48.536 |         1,466.6 |
+
+The fresh zlib captures have identical raw digests, but different elapsed/CPU
+costs; the cause is unisolated. These samples establish neither native-analysis
+acceleration nor a cross-provider speed ranking. OS caches were not flushed.
+The Ghidra row includes first/warm requests and lifecycle, and is not equivalent
+to the one-command native rows. Its analyst question remained unfinished.
+
+Within the final projection runs, parse/index took 130.20 ms / 7.96 ms for
+zlib / SQLite. First query plus serialization took 1.10 ms / 0.64 ms; repeat
+queries on the same immutable index took 0.29 ms / 0.09 ms. Native analysis did
+not run during either projection. This is a useful reuse mechanism, not a claim
+that the original native decompilation becomes that fast.
+
+All resource observations use the existing one-CPU, 4 GiB hard limit, 3 GiB early
+stop and 192-task owner. Peak memory is the kernel cgroup `memory.peak` for the
+whole process family, **including charged file cache**, not RSS. Every captured
+run had verified payload-exit cleanup and zero OOM kills. The complete 12-run
+ledger includes the ambiguous-name failure, the transport failure, the region
+probe, superseded projections and automated verification: 178.051 s wall and
+168.094 s family CPU in total. Manual investigation, old discovery/xrefs, objdump,
+tokenization and development checks are outside that ledger.
+
+The actual Ghidra retained workflow used the existing complete input-only catalog:
+206,954 estimated catalog tokens plus 39,620 captured request/response tokens,
+including failures, lifecycle and export. Exported bundle contents stayed local.
+These costs do not count as a successful solution or as comparable Kuna savings.
+No model reasoning tokens, answer-quality score, controlled agent A/B trial or
+end-to-end agent latency was measured.
+
+## What to explore next
+
+The useful candidate is a shared analysis snapshot with typed facts and relations,
+then bounded question-specific projections. Stable identity must include artifact,
+load space, profile and snapshot; value definitions and block membership need
+native identities in addition to instruction origins. Complete control dependence
+requires a CFG with coverage; alias effects and phi predecessor bindings need
+explicit producer support.
+
+The nearest existing surfaces are `trace_native_values` for analysis and native
+facets of `inspect_analysis_view` for retained reads. Retained views should remain
+read-only: new analysis belongs to the analysis owner. Seeded selection must happen
+before Ghidra's producer limit. Kuna should ideally export a structured IR/CFG
+subset from the native owner instead of making this diagnostic-text decoder a
+production protocol. Do not add a separate MCP tool for each getter or a custom
+query language on the basis of these two functions.
+
+Complex-software superiority is still unproven. The next discriminating question
+is why an input reaches a selected error: that needs phi predecessor bindings and
+control dependencies beyond these local slices, with a completed-task comparison
+against the ordinary C workflow. Keep the small-SQLite counterexample in that
+evaluation rather than optimizing only the large-function case.
+
+## Verification and retained evidence
+
+Six distinct SSA module tests plus the existing nine fact/mapping tests passed.
+Real static captures, exact mapping replay for three errors, bounded SQLite
+composition, 65,536 arithmetic cases, original instruction checks and Ghidra
+retained-Evidence recovery passed. The Ghidra late-literal query did not have
+sufficient producer coverage. Formatter, targeted lint, syntax and whitespace
+checks ran; no production runtime source was changed in this round.
+
+Locally retained evidence is under `.cache/atomic-re-tools/`, including
+`relations-*.{report.json,log}`, `relations-*-raw*.native.txt`, the exported Ghidra
+bundle, `relations-*-query-v2.json`, `relations-verification-v2.json` and
+`relations-summary-v2.json`. Raw captures are not committed. Their SHA-256 values:
+
+- zlib raw: `b1d6bc61755041d2934e4ab173aca4e5fdf40f5bda01ca404458a163b129681b`.
+- SQLite raw: `8a945a1549b855802958bd4d33f37b9aaf00781aa57059fe25cb740244a1cdde`.
+- zlib JSON body/mappings: `21631d31b4b93aa75c200be71a71ffe9f4b209982a9c329a2120d9f7c7509ea3`.
+
+After producing captures with the prefixes used in the scripts, replay and count:
+
+```sh
+node experiments/atomic-re-tools/verify-relations.mjs \
+  .cache/atomic-re-tools .cache/atomic-re-tools/relations-verification-v2.json
+python experiments/atomic-re-tools/summarize-relations.py \
+  .cache/atomic-re-tools .cache/atomic-re-tools/relations-summary-v2.json
+```
+
+The second command requires tiktoken. The checked-in verifier intentionally binds
+to these exact artifacts and oracle addresses; it is not a generic correctness
+test for arbitrary zlib/SQLite versions. Capture Ghidra with
+`capture-function.mjs ghidra <zlib-path> 0x10c1e0 <prefix>`, and SQLite with
+`capture-kuna-structure.mjs <sqlite-path> 0x65180 raw <prefix>`. Caller-supplied
+engine paths and the existing resource wrapper are required as in round one.
+Capture prefixes and output paths must be fresh; exclusive writes preserve any
+existing evidence or caller-owned file.

experiments/atomic-re-tools/research.md

@@ -0,0 +1,112 @@
+# What might count as an RE atom?
+
+This is an experiment record, not a claim that a new universal instruction set
+has been discovered. APIs already expose many relevant primitives. The open
+question here is how to make their evidence, cost and composition useful to an
+agent investigating a real program.
+
+## Existing mechanisms and what they establish
+
+- Ghidra has a program database, `ReferenceManager.getReferencesTo`, function-body
+  ownership through `FunctionManager.getFunctionContaining`, listing objects and
+  decompiler IR. Fine-grained **engine APIs already exist**. A poor MCP projection
+  can still discard their metadata or require excessive round trips.
+  Sources: [ReferenceManager](https://ghidra.re/ghidra_docs/api/ghidra/program/model/symbol/ReferenceManager.html),
+  [FunctionManager](https://ghidra.re/ghidra_docs/api/ghidra/program/model/listing/FunctionManager.html).
+- Binary Ninja distinguishes code/data, type and variable references, including
+  IL-level references. This shows why one undifferentiated `xref` is insufficient
+  for some questions. It does not establish that an MCP interface using these
+  APIs will be token-efficient or that another provider can reproduce the facts.
+  Sources: [type/variable references](https://binary.ninja/2021/04/12/type-and-variable-xrefs.html),
+  [BinaryView API](https://dev-api.binary.ninja/binaryninja.binaryview-module.html).
+- Kuna's Rust engine and SLEIGH compiler derive from Ghidra, while its standalone
+  loader/analyzer tier and CLI are separate components. Port lineage does not
+  imply identical observations or a shared live program database.
+  Source: [NOTICE](https://github.com/Noelo-Lab/kuna/blob/fe01d6294eb0d1053ce343c8943646df88e143fc/NOTICE).
+- In **tested Kuna 1.833**, an `xrefs` command loads a program and builds an
+  `XrefIndex` for its query. A different CLI invocation does that again.
+  `strings` with attribution instead loads/indexes once and joins references over
+  each string's byte extent. That is already internal composition, even though
+  the CLI does not expose an arbitrary persistent query interface.
+  Sources: [xref producer](https://github.com/Noelo-Lab/kuna/blob/fe01d6294eb0d1053ce343c8943646df88e143fc/decompiler/crates/kuna-cli/src/xrefs.rs),
+  [string attribution](https://github.com/Noelo-Lab/kuna/blob/fe01d6294eb0d1053ce343c8943646df88e143fc/decompiler/crates/kuna-cli/src/strings.rs).
+
+These are source-derived observations. They are not measurements of current
+upstream main, a guarantee of decompilation correctness, or a novelty claim.
+
+## Granularity has at least three independent dimensions
+
+| Dimension      | Example                                                | Consequence                                                           |
+| -------------- | ------------------------------------------------------ | --------------------------------------------------------------------- |
+| Fact unit      | One typed reference with both endpoints and provenance | Can be retained and joined without reading unrelated C text           |
+| Transport unit | A batch of references for several selectors            | Amortizes headers and agent turns; need not change native work        |
+| Compute unit   | One image load and reference walk                      | Can serve many fact queries; may cost much more than one returned row |
+
+Calling all three "atomic tools" hides the main optimization opportunity. A tiny
+getter can repeat a whole-program analysis. Conversely, one expensive shared
+analysis can provide precise, small, independently addressable facts.
+
+## Candidate semantic core
+
+1. **Identified objects and located observations**: artifact, image/address-space,
+   byte span, decoded instruction, symbol, string candidate, recovered function,
+   variable and type. Keep width, encoding, storage and confidence where needed
+   to interpret a value. A recovered object is an analysis claim, not necessarily
+   a source-language object that existed before compilation.
+2. **Relations and constraints**: maps-to, owns/contains, references, calls,
+   flows-to, defines/uses, argument binding, type/storage association and branch
+   guard. Keep source and destination, reference site, kind, supporting evidence
+   and unknown/partial coverage. Do not collapse a call site into just a callee.
+3. **Evidence views**: retain the original observations and expose the requested
+   fields, range or neighborhood. A readable decompilation is an important view;
+   it does not replace a machine-grounded relation or prove original source.
+
+Useful query operations resemble selection, projection, traversal, join and
+aggregation. This is a design vocabulary, **not a proposal to add a SQL/graph
+language or Code Mode**. Start with named, typed analyst questions; add more
+general execution only if repeated real workflows demonstrate the need.
+
+## Composition rules that prevent false conclusions
+
+- Entity identity and an observation's identity differ. Artifact/profile/location
+  can identify a function candidate; `evidence_id` identifies one exact claim
+  about it. Keep disagreeing claims instead of deduplicating them by address.
+- A session lease prevents using a handle after close/reopen. It is not a frozen
+  analysis revision. In particular, Kuna's whole-project and early single-function
+  reconstructions can differ under the same selected profile. Target admission
+  prevents a target switch; it does not establish a consistent analysis snapshot.
+- A string spans bytes. A point-address xref and a reference anywhere inside that
+  object answer different questions. A data-pointer reference is not automatically
+  a runtime call, string consumption, or a reachable execution path.
+- Omission, an unsupported operation, cancellation, an unowned reference and an
+  examined empty set are different outcomes. No empty set proves global absence
+  unless the producing analysis actually establishes that coverage.
+- Field selection must not detach a value from the metadata that makes it
+  meaningful. For example, the first prototype keeps REA's complete `string`
+  metadata record as one selectable field, including its encoding status.
+- Expensive producer work should be shared with explicit identity, lifetime,
+  invalidation and cancellation ownership. A client-side batch is insufficient
+  evidence that native work was shared.
+
+## What complex-program effectiveness would require
+
+Navigation is only the first tier. Finding a string and its users is weaker than
+explaining why a branch rejects input or how data reaches a privileged operation.
+The next tier needs definition/use, call-argument and memory-flow relationships,
+with explicit analysis assumptions. The existing prototypes do **not** supply
+those relationships, and slicing C text cannot manufacture them.
+
+For every harder trial, specify the analyst question, independent answer/evidence
+oracle, input artifact/profile, initial knowledge and allowed budget. Compare:
+
+- whether the actual question was answered correctly;
+- decisive evidence recovered and relevant evidence omitted;
+- remaining unknowns and unsafe conclusions;
+- all calls, follow-up reads, failures, latency, CPU, family memory and estimated
+  token traffic, including tool discovery and retained Evidence reads.
+
+Source inspection can establish architectural opportunities. Scripted equivalent
+workflows can establish transport and engine costs. Neither alone establishes
+that a live agent reasons better on complex software; a controlled agent trial
+is a separate validation step. Likewise, byte/token reductions alone do not
+establish improved correctness or analyst productivity.

experiments/atomic-re-tools/results.md

@@ -0,0 +1,216 @@
+# First-round results
+
+Continued in the [control-flow / SSA experiment](relations.md). The results below
+remain the fixed first-round baseline, including its failed mapping composition.
+
+This is a completed, bounded first round of exploration, including failures.
+It does **not** establish that an agent solves complex RE tasks better than with
+the existing tools. No PR, merge, target execution or executable mutation occurred;
+Ghidra used its normal ephemeral analysis databases.
+
+## Inputs and measurement
+
+- REA base: `5b16f2431062eea6ffd245a9e05512790007cb13`; experiment commits retain
+  the runnable code and tests. Node 24.18.0 / npm 11.16.0.
+- Kuna 1.833, executable SHA-256
+  `d858918b0766435cd96b999a77f2d5a31a0cc4f07256421c883b5b9dc4dd58e4`.
+  These results do not verify newer Kuna releases.
+- Ghidra 12.1.4, Temurin JDK 21.0.12.1+1, Java heap 1 GiB.
+- Installed zlib: `/usr/lib/x86_64-linux-gnu/libz.so.1.2.13`, SHA-256
+  `7e2a72b4c4b38c61e6962de6e3f4a5e9ae692e732c68deead10a7ce2135a7f68`.
+- Installed SQLite: `/usr/lib/x86_64-linux-gnu/libsqlite3.so.0.8.6`, SHA-256
+  `2e6eef9a727f081f0d453b4e5e6cbd8b9ef8b6f86cbf7681cbad444d3b0b55c8`.
+- Real-provider jobs used the existing scope runner: one CPU, affinity to one
+  allowed core, 4 GiB hard memory limit, early stop at 3 GiB. They ran serially.
+  Build/type/test gates used separate bounded scopes, up to two CPUs / 4 GiB.
+- CPU is complete owned-cgroup CPU at payload exit. Memory is kernel
+  `memory.peak` for the process family, **including charged file cache**, not RSS.
+  The observer verified cleanup and resource counters while its scope was alive.
+- Tokens below are **offline `o200k_base` estimates**, tiktoken 0.14.0, over actual
+  captured MCP payloads, including text and structured copies. They are not
+  model-billed tokens. Model reasoning, tool selection, host rendering, cache
+  billing and JSON-RPC framing were not measured.
+- Each table row is **one sample**, not a median or controlled causal estimate.
+  OS caches were not flushed. Startup and native work varied substantially on
+  this shared host. No universal latency improvement is established.
+
+## Experiment 1: transport granularity
+
+Task: case-sensitive literal search (`incorrect` in zlib, `malformed` in SQLite),
+select the first three provider-ordered string candidates, read at most four
+exact-start reference sites per candidate, then resolve their containing
+functions when advertised. Repeat in the same session to measure warm reads.
+Unsupported Kuna function resolution remains unknown, rather than guessed.
+
+The four variants use the same application/provider observations. Native query
+planning was unchanged. `fine` reads individual facts; `batch` groups homogeneous
+reads; `workflow` composes those same fact methods in one call.
+
+These captures measure the **v1 fact response shape**, introduced at `fa8d6a7a2`.
+Later selector/scope and transport-provenance clarifications are not retroactive
+performance measurements; rerun the harness to measure their current payload.
+
+| Provider / target | Variant  | Calls per task | Query payload tokens, first / warm | First query task ms | Warm task ms | Session CPU s | Peak family MiB |
+| ----------------- | -------- | -------------: | ---------------------------------: | ------------------: | -----------: | ------------: | --------------: |
+| Ghidra / zlib     | existing |             10 |                    41,565 / 41,565 |              34,926 |          429 |         50.00 |           1,444 |
+| Ghidra / zlib     | fine     |             10 |                    23,483 / 23,483 |              34,260 |          120 |         47.37 |           1,376 |
+| Ghidra / zlib     | batch    |              3 |                    20,114 / 20,114 |              75,202 |          218 |         52.63 |           1,360 |
+| Ghidra / zlib     | workflow |              1 |                    19,824 / 19,824 |              75,491 |          198 |         51.76 |           1,276 |
+| Kuna / zlib       | existing |              4 |                      5,638 / 5,638 |               4,079 |           44 |         16.12 |             905 |
+| Kuna / zlib       | fine     |              5 |                      4,702 / 4,702 |               2,857 |           51 |         15.61 |             927 |
+| Kuna / zlib       | batch    |              3 |                      3,774 / 3,774 |               2,843 |           59 |         15.14 |             911 |
+| Kuna / zlib       | workflow |              1 |                      3,509 / 3,509 |               1,376 |           11 |         14.34 |             922 |
+| Kuna / SQLite     | existing |              4 |                      6,039 / 6,039 |               5,874 |           24 |         19.15 |             994 |
+| Kuna / SQLite     | fine     |              5 |                      4,753 / 4,753 |              13,058 |           47 |         20.40 |             989 |
+| Kuna / SQLite     | batch    |              3 |                      3,829 / 3,829 |              25,868 |          217 |         25.85 |           1,022 |
+| Kuna / SQLite     | workflow |              1 |                      3,560 / 3,560 |              36,231 |           39 |         58.19 |           1,004 |
+
+Session CPU/memory include MCP startup, catalog/status discovery, both tasks and
+close/cleanup. Query timers exclude the earlier `open_binary`; Ghidra lazily
+performs import/preparation during its first query. Whole-session elapsed times
+for existing/workflow were 50.67/104.15 s (Ghidra zlib), 32.46/16.63 s (Kuna zlib),
+and 19.46/159.81 s (Kuna SQLite). The SQLite workflow's `open_binary` itself took
+64.98 s versus 7.31 s in the existing-tools sample, before any experimental fact
+query. Cause is unresolved; neither host contention nor adapter overhead has
+been established as the explanation. Do not interpret these samples as a
+controlled speedup or slowdown attributable to atomization.
+
+**Failure retained:** the first Ghidra batch attempt hit its 120 s provider
+request deadline during cold preparation. Its log ended in `ReaGhidraNoReturnFix`
+after reporting successful auto-analysis. The attempt cost 141.45 s elapsed,
+106.19 CPU s and 1,211 MiB peak; cleanup was verified and OOM kills were zero.
+The successful batch row excludes that failed attempt; any retry-cost comparison
+must add it. All twelve successful rows agreed on the selected strings,
+reference sites and function-resolution outcomes within each provider/target.
+That is adapter equivalence, not an independent proof of native discovery.
+
+### Fixed context costs
+
+The existing catalog had 207 tools; the prototype added five, retaining every
+existing tool. Actual default catalogs included output schemas: about 842k /
+843k estimated tokens. Removing only output schemas gives about 207k / 208k.
+This input-only projection is **not** an assertion about any particular model
+host: hosts can omit output schemas, deduplicate content or cache declarations.
+
+For a session containing both completed tasks plus lifecycle/status traffic,
+the input-only-catalog estimate changed as follows:
+
+| Provider / target | Existing tools | Workflow |
+| ----------------- | -------------: | -------: |
+| Ghidra / zlib     |        319,907 |  277,458 |
+| Kuna / zlib       |        245,476 |  242,249 |
+| Kuna / SQLite     |        245,803 |  241,870 |
+
+Thus a large reduction in query payload need not produce a large whole-task
+context reduction. Catalog/discovery and repeated envelopes deserve separate
+attention. This experiment has not yet tested a client that loads declarations
+on demand or an explicitly smaller, separately declared service surface.
+
+## Experiment 2: compute sharing in native Kuna
+
+Both plans first obtain a complete reference-free scan, validated by REA's
+existing string-fact owner. Then select three matching strings. The point plan
+runs `xrefs --to` separately; the inventory plan runs `strings` with attribution
+once, letting Kuna share its reference index. Full source JSON is retained
+locally, while only selected facts need be exposed to a caller.
+
+| Target | Plan               | Native commands | Elapsed s | CPU s | Peak family MiB |
+| ------ | ------------------ | --------------: | --------: | ----: | --------------: |
+| zlib   | per address        |               4 |     3.846 | 1.796 |           110.4 |
+| zlib   | shared attribution |               2 |     2.838 | 1.341 |           114.4 |
+| SQLite | per address        |               4 |    13.221 | 6.497 |           196.1 |
+| SQLite | shared attribution |               2 |     6.261 | 3.028 |           196.6 |
+
+For these selected samples, both plans found one owner per string. Their scopes
+are nevertheless **different**: point references cover the first address;
+attribution covers any byte in the string extent. Attribution also does not
+return individual sites/kinds. These figures establish costs of the two real
+plans, not a universally equivalent-query speedup. They support investigating
+producer-level work sharing, with query selectivity and coverage kept explicit.
+This is a native-boundary experiment, not an MCP/model token measurement.
+
+## Experiment 3: the point/object distinction changes correctness
+
+`interior-reference.c` is compiled with `gcc -O2 -fno-pie -no-pie` and never run.
+Its `give_suffix` returns a pointer five bytes into `marker`. In this build,
+`nm` reports `marker=0x402020`, `give_suffix=0x401120`; `objdump` independently
+shows `mov $0x402025,%eax` followed by `ret` in `give_suffix`.
+
+- Exact-start xref query: zero references, no owner.
+- Extent attribution: one reference, owner `give_suffix` at `0x401120`.
+
+`verify-interior.py` checks the compiled symbols, input and retained-source
+digests, and both native results. This is a genuine counterexample to treating
+"no xref to the start address" as "the string has no users". Neither tool was
+wrong about its own scope. The compositional representation must carry the
+object span and reference offset/scope instead of silently equating the questions.
+
+## Experiment 4: existing relations do not always bridge into code
+
+On real zlib, the three selected string references belong to `inflate` at
+`0xc1e0`; their reference instructions are at `0xded7`, `0xdc6a` and `0xcd05`.
+The native single-function JSON contains 52,431 characters / 1,620 code lines,
+1,167 mapping records and 1,568 mapped instruction addresses. **None of those
+three reference instructions occurs in the printer's line mappings.**
+
+The exact-address composition therefore returns **unknown**, not a guessed
+nearby line. The mapped-code run cost 8.387 s / 8.091 CPU s / 202.0 MiB, including
+discovery/references and decompilation. It did not finish the analyst question
+"which condition triggers the error?" and must not count as a successful
+context-saving answer. Single-function work uses REA's owned command deadline
+and the native `--max-fn-memory` option shown by the tested CLI's actual help.
+
+The retained C text does contain the error literal at line 164, but a small
+fixed window there omits the earlier check around lines 122–124. Literal search
+and a larger manual read can help, but they are **reconstructed-text evidence**,
+not the missing machine-to-source relation. This is not proof that Kuna's line
+mapping is buggy: the contract does not promise every contributing instruction
+survives transformation into an emitted line.
+
+The next useful relations to test are instruction/block ownership, control-flow
+guards and definition/use or contributing-origin edges across transformations.
+For a stronger zlib question, an independent expected mechanism is the FCHECK
+constraint in [RFC 1950 §2.2](https://www.rfc-editor.org/rfc/rfc1950.html#section-2.2):
+the network-order CMF/FLG value must be divisible by 31. Testing an agent's
+explanation against that mechanism would be a separate trial; this experiment
+does not claim to have completed that trial.
+
+## Validation
+
+- All **191 Kuna regression cases in 20 files passed with one worker**; the
+  owning reference parser's 18 cases include typed endpoints, distinct kinds,
+  unknown ownership, alias exclusion and late malformed rows. A prior two-worker
+  CPU-limited run had three timing-sensitive failures in existing project/export
+  tests. Those tests were not edited; the isolated cause is not established.
+- Nine experiment boundary cases passed, including stale artifact/profile/lease,
+  partial batches, duplicate point lookups, paging, unsupported ownership,
+  unmapped/unsafe addresses and invalid line locations.
+- Typecheck passed with one checker. Changed experiment files passed formatter
+  and lint; the existing graph parser's complexity warning remains unrelated.
+- A real Kuna MCP run with the actual output-schema **off** profile passed
+  paging, duplicate-selector, negative/unknown, retained-Evidence, foreign-context
+  and expired-lease checks. Its live catalog had 212 tools and zero output
+  schemas. Verification runs are excluded from the performance table.
+- The v2 facade was also exercised through a real Kuna MCP client: edges carry
+  explicit point scope and location endpoints, caller selectors stay separate,
+  and successful/error results retain the canonical untrusted-target marker.
+  The same six additional verification groups passed. This v2 verification is
+  not relabelled as a new performance comparison.
+- All real-provider measurements reported verified cleanup and zero OOM kills.
+  No default parallel-suite stability, live-model reasoning improvement, general
+  high-address code mapping, overlay support or newer Kuna compatibility is claimed.
+
+## What this round supports
+
+- A coherent fact includes the metadata needed to interpret it. One-field
+  getters are not necessarily useful atoms.
+- Fact, transport and compute units are different. Batches/workflows can share
+  one fact implementation while the producer independently shares analysis.
+- Identity and evidence are necessary, but scope and uncertainty determine
+  whether joins answer the analyst's actual question.
+- Complex-program effectiveness remains **unproven**. The experiments found a
+  real coverage distinction and a real composition gap, not a universal RE API.
+
+Raw captures, projects, binaries and counters remain ignored under
+`.cache/atomic-re-tools/`. `summarize.py` checks selected-answer equivalence,
+payload-exit cleanup and OOM counters, and includes failed runs separately.

experiments/atomic-re-tools/run-matrix.py

@@ -0,0 +1,40 @@
+"""Run comparable real-provider tasks serially using REA's existing scope owner."""
+import argparse
+import json
+from pathlib import Path
+import subprocess
+import sys
+
+
+def main():
+    parser = argparse.ArgumentParser()
+    parser.add_argument("--provider", choices=["kuna", "ghidra"], required=True)
+    parser.add_argument("--binary", required=True)
+    parser.add_argument("--pattern", required=True)
+    parser.add_argument("--output", required=True)
+    parser.add_argument("--variants", nargs="+", choices=["baseline", "fine", "batch", "workflow"],
+                        default=["baseline", "fine", "batch", "workflow"])
+    options = parser.parse_args()
+    root = Path(options.output).resolve()
+    root.mkdir(parents=True, exist_ok=True)
+    completed = []
+    for variant in options.variants:
+        prefix = root / (options.provider + "-" + variant)
+        command = [sys.executable, "experiments/analysis-efficiency/resource-run.py", "--observe-payload-exit", "--",
+                   "node", "experiments/atomic-re-tools/benchmark.mjs", options.provider, variant,
+                   options.binary, options.pattern, str(prefix)]
+        with Path(str(prefix) + ".log").open("w") as output:
+            result = subprocess.run(command, stdout=output, stderr=subprocess.STDOUT, check=False)
+        if result.returncode:
+            raise SystemExit(f"{variant} failed ({result.returncode}); retained {prefix}.log")
+        report = json.loads(Path(str(prefix) + ".report.json").read_text())
+        if report["failures"] or report["verification_only"]:
+            raise SystemExit("Not a successful comparable performance sample: " + str(prefix))
+        completed.append(str(prefix))
+        (root / (options.provider + "-completed.json")).write_text(json.dumps(completed, indent=2) + "\n")
+        print(json.dumps({"completed": variant, "provider": options.provider,
+                          "query_ms": [round(row["elapsed_ms"], 2) for row in report["outcomes"]]}), flush=True)
+
+
+if __name__ == "__main__":
+    main()

experiments/atomic-re-tools/server.mjs

@@ -0,0 +1,202 @@
+// Experimental tools are added to the complete production catalog, never shipped.
+import { serveStdio } from "@modelcontextprotocol/server/stdio";
+import { z } from "zod";
+import { run } from "../../dist/main.js";
+import { createServer } from "../../dist/server/createServer.js";
+import { createEvidence } from "../../dist/domain/evidence.js";
+import { projectAnalysisError } from "../../dist/domain/analysisErrorProjection.js";
+import { toolContract } from "../../dist/contracts/toolContracts.js";
+import { TARGET_CONTENT_RESULT_META } from "../../dist/server/toolResultEncoding.js";
+import { expandProviderCapabilities } from "../../dist/contracts/toolOutputSchemaPrimitives.js";
+import { FactQueries, contextFor } from "./facts.mjs";
+
+const contextSchema = z.strictObject({ ref: z.string(), lease: z.string() });
+const location = z.strictObject({
+  kind: z.literal("location"),
+  address: z.string().min(1),
+});
+const stringId = z.strictObject({
+  kind: z.literal("string"),
+  address: z.string().min(1),
+  encoding: z.string().nullable(),
+});
+const paging = {
+  offset: z.number().int().nonnegative().default(0),
+  limit: z.number().int().positive().default(20),
+};
+const stringsInput = z.strictObject({
+  query: toolContract("search_strings").inputSchema,
+  ...paging,
+  fields: z.array(z.enum(["value", "string"])).default(["value"]),
+});
+const contracts = [
+  [
+    "experiment_find_strings",
+    "Find string facts with scoped identities, selected fields, paging and retained source Evidence. Experimental; provider discovery coverage remains unknown.",
+    stringsInput,
+    "findStrings",
+  ],
+  [
+    "experiment_incoming_refs",
+    "Read incoming reference facts for a batch of string identities from this session. Preserve per-target failures and unknown reference kinds. Reuse the context ref and lease returned by find_strings.",
+    z.strictObject({
+      context: contextSchema,
+      targets: z.array(stringId),
+      ...paging,
+    }),
+    "incomingReferences",
+  ],
+  [
+    "experiment_resolve_functions",
+    "Resolve a batch of instruction locations to provider-analyzed containing functions. Unsupported or failed resolution stays unknown; never guess the nearest symbol.",
+    z.strictObject({ context: contextSchema, locations: z.array(location) }),
+    "resolveFunctions",
+  ],
+  [
+    "experiment_trace_string_uses",
+    "Compose the same string, incoming reference and containing-function facts in one call. Page limits and partial outcomes remain explicit.",
+    stringsInput.extend({
+      reference_limit: z.number().int().positive().default(20),
+      include_functions: z.boolean().default(true),
+    }),
+    "traceStringUses",
+  ],
+];
+
+const encode = (value) => ({
+  _meta: TARGET_CONTENT_RESULT_META,
+  content: [{ type: "text", text: JSON.stringify(value) }],
+  structuredContent: value,
+  ...(value.status === "error" ? { isError: true } : {}),
+});
+
+const createFacts = (session, analysis, signal) => {
+  const status = session.status();
+  const context = contextFor(
+    session.activeTarget().sha256,
+    session.analysisProfile("search_strings"),
+    status.analysis_run.run_id,
+  );
+  const capabilities = expandProviderCapabilities(status.capabilities);
+  const facts = new FactQueries({
+    supports: (operation) =>
+      capabilities.some(
+        (capability) =>
+          capability.operation === operation && capability.available,
+      ),
+    context: () => context,
+    observe: async (operation, parameters) => {
+      const outcome = await analysis.execute(
+        operation,
+        toolContract(operation).inputSchema.parse(parameters),
+        { signal: signal },
+      );
+      if (!outcome.ok)
+        return {
+          ok: false,
+          error: projectAnalysisError(outcome.error),
+        };
+      const execution = outcome.value;
+      const evidence = createEvidence(
+        execution.subject ?? session.activeTarget(),
+        execution.provider,
+        {
+          operation,
+          parameters,
+          result: execution.result,
+          analysisProfile: execution.analysisProfile,
+          rawResult: execution.rawResult,
+          limitations: execution.limitations,
+          relationshipCoverage: execution.relationshipCoverage,
+          locations: execution.locations,
+        },
+      );
+      const recorded = session.recordEvidence(evidence);
+      return recorded.ok
+        ? { ok: true, value: evidence }
+        : {
+            ok: false,
+            error: projectAnalysisError(recorded.error),
+          };
+    },
+  });
+
+  return facts;
+};
+
+await run({
+  env: process.env,
+  serve: serveStdio,
+  writeStderr: (value) => process.stderr.write(value),
+  setExitCode: (value) => {
+    process.exitCode = value;
+  },
+  registerShutdown: (handler) => {
+    const registrations = [
+      [process, "SIGINT"],
+      [process, "SIGTERM"],
+      [process.stdin, "end"],
+      [process.stdin, "close"],
+    ];
+    for (const [emitter, event] of registrations) emitter.once(event, handler);
+    return () => {
+      for (const [emitter, event] of registrations) emitter.off(event, handler);
+    };
+  },
+  createServer(source, options) {
+    const server = createServer(source, options);
+    const session = source.session;
+    for (const [name, description, inputSchema, method] of contracts) {
+      server.registerTool(
+        name,
+        { description, inputSchema, annotations: { readOnlyHint: true } },
+        async (input, request) => {
+          const admitted = await session.withAdmittedAnalysis(
+            name,
+            request.mcpReq.signal,
+            async (analysis) => {
+              const facts = createFacts(
+                session,
+                analysis,
+                request.mcpReq.signal,
+              );
+              return facts[method](inputSchema.parse(input));
+            },
+          );
+          return encode(
+            admitted.ok
+              ? admitted.value
+              : {
+                  status: "error",
+                  error: projectAnalysisError(admitted.error),
+                },
+          );
+        },
+      );
+    }
+    server.registerTool(
+      "experiment_read_evidence",
+      {
+        description:
+          "Read complete retained source Evidence explicitly by evidence_id while the existing session record owner retains it. Closing the binary expires these records.",
+        inputSchema: z.strictObject({ evidence_id: z.string().min(1) }),
+        annotations: { readOnlyHint: true },
+      },
+      (input) => {
+        const evidence = session.evidenceById(input.evidence_id);
+        return encode(
+          evidence === undefined
+            ? {
+                status: "error",
+                error: {
+                  code: "not_found",
+                  message: "Evidence is not retained in this server.",
+                },
+              }
+            : { status: "ok", evidence },
+        );
+      },
+    );
+    return server;
+  },
+});

experiments/atomic-re-tools/summarize-relations.py

@@ -0,0 +1,94 @@
+"""Representation estimates and a complete ledger of this round's captured runs.
+
+Run with the tokenizer environment from the first round. This does not measure
+model billing, model reasoning, or equivalent completed agent tasks.
+"""
+import importlib.metadata
+import json
+from pathlib import Path
+import sys
+
+import tiktoken
+
+
+def load(path):
+    return json.loads(path.read_text())
+
+
+def resource(path):
+    records = [json.loads(line) for line in path.read_text().splitlines()
+               if line.startswith('{"resource_scope":')]
+    assert len(records) == 1, path
+    record = records[0]
+    observation = record['payload_resource_observation']
+    assert record['payload_resource_observation_verified'] is True
+    assert observation['payload_cleanup_verified'] is True
+    return {
+        'log': str(path), 'elapsed_s': record['elapsed_seconds'],
+        'cpu_s': observation['cpu_stat']['usage_usec'] / 1_000_000,
+        'family_peak_mib_including_file_cache': observation['memory_peak_bytes'] / 2**20,
+        'exit_code': observation['payload_exit_code'],
+        'oom_kills': observation['resource_events']['memory.events']['oom_kill'],
+    }
+
+
+def main():
+    root, output = map(Path, sys.argv[1:])
+    encoder = tiktoken.get_encoding('o200k_base')
+
+    def tokens(value):
+        return len(encoder.encode(value, disallowed_special=()))
+
+    def encoded(value):
+        return json.dumps(value, ensure_ascii=False, separators=(',', ':'))
+
+    rows = []
+    for name, prefix, query_file in [
+        ('zlib', 'relations-kuna-zlib-raw-v2', 'relations-zlib-query-v2.json'),
+        ('sqlite', 'relations-kuna-sqlite-raw', 'relations-sqlite-query-v2.json'),
+    ]:
+        capture = load(root / (prefix + '.report.json'))
+        query = load(root / query_file)
+        raw = Path(capture['calls'][0]['file']).read_text()
+        code = raw.split('\n0\nBasic Block', 1)[0].strip()
+        answers = query['runs'][0]['answers']
+        rows.append({
+            'target': name, 'artifact_sha256': capture['target_sha256'],
+            'full_code_tokens': tokens(code), 'full_code_bytes': len(code.encode()),
+            'full_native_dump_tokens': tokens(raw),
+            'selected_answer_tokens_with_source': [tokens(encoded({'source': query['source'], 'answer': a})) for a in answers],
+            'batch_answer_tokens_with_source': tokens(encoded({'source': query['source'], 'answers': answers})),
+            'parse_index_ms': query['parse_index_ms'],
+            'projection_runs': [{k: v for k, v in r.items() if k != 'answers'} for r in query['runs']],
+            'snapshot_coverage': query['coverage'],
+        })
+    ghidra = root / 'relations-ghidra-zlib-retained'
+    wire = load(ghidra.with_suffix('.wire.json'))
+    report = load(ghidra.with_suffix('.report.json'))
+    resources = [resource(p) for p in sorted(root.glob('relations-*.log'))]
+    summary = {
+        'encoding': 'o200k_base', 'tiktoken': importlib.metadata.version('tiktoken'),
+        'representation_estimates': rows,
+        'ghidra_retained_workflow': {
+            'wire_tokens_including_errors_and_exports': tokens(encoded(wire)),
+            'input_only_catalog_tokens': tokens(encoded(load(ghidra.with_suffix('.catalog.json')))),
+            'calls': report['calls'], 'analyst_task_completed': False,
+            'reason': 'Late literal not covered by the producer-truncated high-p-code prefix.',
+        },
+        'run_ledger': resources,
+        'scope': [
+            'Raw captures are fresh native analyses; OS caches were not flushed.',
+            'Reused-index runs reuse parsed facts, not a warm native analysis.',
+            'Token counts cover the stated representations. The native probe has no new MCP catalog.',
+            'No controlled agent A/B task, model reasoning tokens or model latency measured.',
+            'Discovery, old xrefs, manual oracle construction, objdump and tokenizer CPU are outside the native/projection runs.',
+            'The ledger retains failed and superseded probes rather than excluding their costs.',
+        ],
+    }
+    with output.open('x') as destination:
+        destination.write(json.dumps(summary, indent=2) + '\n')
+    print(json.dumps({'output': str(output), 'targets': len(rows), 'runs': len(resources)}))
+
+
+if __name__ == '__main__':
+    main()

experiments/atomic-re-tools/summarize.py

@@ -0,0 +1,84 @@
+"""Compare completed equivalent tasks; token counts are offline estimates only."""
+import argparse
+import importlib.metadata
+import json
+from pathlib import Path
+import tiktoken
+
+
+def main():
+    parser = argparse.ArgumentParser()
+    parser.add_argument("roots", nargs="+")
+    options = parser.parse_args()
+    encoding = tiktoken.get_encoding("o200k_base")
+
+    def tokens(value):
+        return len(encoding.encode(json.dumps(value, ensure_ascii=False, separators=(",", ":")), disallowed_special=()))
+
+    results = []
+    failed_runs = []
+    equivalence = {}
+    for root in map(Path, options.roots):
+        for report_path in sorted(root.glob("*.report.json")):
+            report = json.loads(report_path.read_text())
+            if report["verification_only"]:
+                continue
+            prefix = str(report_path).removesuffix(".report.json")
+            catalog = json.loads(Path(prefix + ".catalog.json").read_text())
+            wire = json.loads(Path(prefix + ".wire.json").read_text())
+            resources = [json.loads(line) for line in Path(prefix + ".log").read_text().splitlines()
+                         if line.startswith('{"resource_scope":')][-1]
+            assert resources["payload_resource_observation_verified"], prefix
+            counters = resources["payload_resource_observation"]
+            assert counters["payload_cleanup_verified"], prefix
+            assert counters["resource_events"]["memory.events"]["oom_kill"] == 0, prefix
+            if report["failures"]:
+                failed_runs.append({"provider": report["provider"], "variant": report["variant"], "target": report["binary"],
+                                    "elapsed_seconds": resources["elapsed_seconds"], "cpu_seconds": round(counters["cpu_stat"]["usage_usec"] / 1e6, 3),
+                                    "peak_process_family_cgroup_mib": round(counters["memory_peak_bytes"] / 1024 ** 2, 1),
+                                    "failure_count": len(report["failures"]), "retained_prefix": prefix,
+                                    "cleanup_verified": True, "oom_kills": 0})
+                continue
+            assert counters["payload_exit_code"] == 0, prefix
+            key = (report["provider"], report["target_sha256"], report["pattern"])
+            outcome = [{name: row[name] for name in ["strings", "references", "functions"]} for row in report["outcomes"]]
+            if key in equivalence:
+                assert outcome == equivalence[key], "Equivalent-task answers differ: " + prefix
+            else:
+                equivalence[key] = outcome
+            phase_traffic = {phase: [{"request": row["request"], "response": row["response"]} for row in wire if row["phase"] == phase]
+                             for phase in ["cold", "warm", "lifecycle"]}
+            used = {row["request"]["name"] for row in wire}
+            input_only_catalog = {**catalog, "tools": [{key: value for key, value in tool.items() if key != "outputSchema"} for tool in catalog["tools"]]}
+            task_traffic = [row for row in wire if row["phase"] in ["cold", "warm", "lifecycle"]]
+            rows = {phase: {"calls": len(traffic), "estimated_tokens": tokens(traffic)} for phase, traffic in phase_traffic.items()}
+            results.append({
+                "provider": report["provider"], "variant": report["variant"], "target_sha256": report["target_sha256"],
+                "pattern": report["pattern"], "catalog_tools": len(catalog["tools"]), "catalog_estimated_tokens": tokens(catalog),
+                "observed_output_schema_count": sum("outputSchema" in tool for tool in catalog["tools"]),
+                "input_only_catalog_estimated_tokens": tokens(input_only_catalog),
+                "phases": rows,
+                "query_elapsed_ms": {row["phase"]: round(row["elapsed_ms"], 2) for row in report["outcomes"]},
+                "session_elapsed_seconds_including_two_tasks": resources["elapsed_seconds"],
+                "session_cpu_seconds_including_two_tasks": round(counters["cpu_stat"]["usage_usec"] / 1e6, 3),
+                "peak_process_family_cgroup_mib": round(counters["memory_peak_bytes"] / 1024 ** 2, 1),
+                "whole_session_estimated_tokens": tokens(catalog) + tokens([{"request": row["request"], "response": row["response"]} for row in task_traffic]),
+                "whole_session_with_input_only_catalog_estimated_tokens": tokens(input_only_catalog) + tokens([{"request": row["request"], "response": row["response"]} for row in task_traffic]),
+                "hypothetical_selected_declarations_estimated_tokens": tokens([tool for tool in catalog["tools"] if tool["name"] in used]),
+                "answer": {"strings": len(outcome[0]["strings"]), "reference_sites": sum(len(row["items"]) for row in outcome[0]["references"]), "locations": len(outcome[0]["functions"])},
+                "cleanup_verified": True, "oom_kills": 0,
+            })
+    summary = {
+        "token_method": {"encoding": "o200k_base", "tiktoken_version": importlib.metadata.version("tiktoken"),
+                         "estimated_not_billed": True, "scope": "Captured MCP tool catalog and request/response payloads, including text and structured copies; excludes JSON-RPC framing, model reasoning, host prompts and model tool selection."},
+        "memory_method": "Kernel memory.peak for the complete owned process-family cgroup, including charged file cache; not summed RSS. Payload-exit counters verified while the observer remains alive.",
+        "workload": "One cold and one warm selected navigation task per fresh session, plus startup, discovery/status, close and cleanup. Additional --verify runs excluded.",
+        "equivalence": "All included variants agree on selected strings, reference sites and per-location function resolutions within each provider/target/query. This is not cross-provider truth or a live-agent reasoning evaluation.",
+        "results": results,
+        "failed_runs": failed_runs,
+    }
+    print(json.dumps(summary, indent=2))
+
+
+if __name__ == "__main__":
+    main()

experiments/atomic-re-tools/verify-interior.py

@@ -0,0 +1,26 @@
+"""Independent compiled-symbol oracle for the interior-only reference experiment."""
+import hashlib
+import json
+from pathlib import Path
+import subprocess
+import sys
+
+binary, point_report, extent_report = map(Path, sys.argv[1:])
+point, extent = [json.loads(path.read_text()) for path in [point_report, extent_report]]
+symbols = {}
+for line in subprocess.check_output(["nm", "--defined-only", "--format=posix", str(binary)], text=True).splitlines():
+    fields = line.split()
+    if fields[0] in ["marker", "give_suffix"]:
+        symbols[fields[0]] = "0x" + format(int(fields[2], 16), "x")
+assert set(symbols) == {"marker", "give_suffix"}
+for report in [point, extent]:
+    assert not report["failures"]
+    assert report["facts"]["artifact_sha256"] == hashlib.sha256(binary.read_bytes()).hexdigest()
+    for call in report["calls"]:
+        assert hashlib.sha256(Path(call["file"]).read_bytes()).hexdigest() == call["sha256"]
+    assert report["facts"]["results"][0]["string"]["address"] == symbols["marker"]
+assert point["facts"]["results"][0]["xrefs_count"] == 0
+assert point["facts"]["results"][0]["functions"] == []
+assert extent["facts"]["results"][0]["xrefs_count"] == 1
+assert [fn["address"] for fn in extent["facts"]["results"][0]["functions"]] == [symbols["give_suffix"]]
+print(json.dumps({"verified": True, "point_references": 0, "extent_references": 1, "symbols": symbols}))

experiments/atomic-re-tools/verify-relations.mjs

@@ -0,0 +1,163 @@
+// Replay real captures against independent machine-byte and arithmetic checks.
+import assert from "node:assert/strict";
+import { createHash } from "node:crypto";
+import { readFile, writeFile } from "node:fs/promises";
+import { join } from "node:path";
+import { mappedCode } from "./mapped-code.mjs";
+import { parseKunaSsaDump } from "./kuna-ssa.mjs";
+import { queryLiteralUses } from "./query-ssa.mjs";
+
+const [root, output] = process.argv.slice(2);
+assert.ok(root && output);
+const json = async (name) =>
+  JSON.parse(await readFile(join(root, name), "utf8"));
+const sha256 = (value) => createHash("sha256").update(value).digest("hex");
+const zlib = await json("relations-zlib-query-v2.json");
+const sqlite = await json("relations-sqlite-query-v2.json");
+assert.deepEqual(zlib.runs[0].answers, zlib.runs[1].answers);
+assert.deepEqual(sqlite.runs[0].answers, sqlite.runs[1].answers);
+for (const query of [zlib, sqlite]) {
+  const source = await readFile(query.source.raw.file, "utf8");
+  assert.equal(sha256(source), query.source.raw.sha256);
+  const snapshot = parseKunaSsaDump(source);
+  for (const answer of query.runs[0].answers)
+    assert.deepEqual(queryLiteralUses(snapshot, answer.literal), answer);
+}
+const old = await json("native-zlib-code-fixed.report.json");
+assert.equal(zlib.source.artifact_sha256, old.facts.artifact_sha256);
+assert.deepEqual(zlib.source.engine, old.facts.engine);
+const bodySource = old.calls.find((call) => call.arguments[0] === "decompile");
+const body = await readFile(bodySource.file, "utf8");
+assert.equal(sha256(body), bodySource.sha256);
+const bodyDocument = JSON.parse(body);
+const raw = await readFile(zlib.source.raw.file, "utf8");
+assert.equal(sha256(raw), zlib.source.raw.sha256);
+assert.equal(
+  raw.split("\n0\nBasic Block", 1)[0].trim(),
+  bodyDocument.functions[0].code.trim(),
+  "Cross-surface emitted C differs",
+);
+const native = async () => ({
+  input: bodyDocument.binary,
+  stdout: { text: body },
+});
+const mappings = [];
+for (const [i, expectedLine] of [164, 551, 653].entries()) {
+  const answer = zlib.runs[0].answers[i];
+  const original = old.facts.results[i];
+  assert.equal(answer.literal, original.string.address);
+  const failed = await mappedCode(native, original);
+  assert.equal(failed.status, "unknown");
+  const sites = answer.direct_uses.map((id) => ({
+    from: answer.operations.find((op) => op.id === id).address,
+  }));
+  const mapped = await mappedCode(native, {
+    functions: original.functions,
+    sites,
+  });
+  assert.equal(mapped.status, "ok");
+  assert.deepEqual(mapped.exact_mapped_lines, [expectedLine]);
+  mappings.push({
+    literal: answer.literal,
+    original_sites: original.sites.map((s) => s.from),
+    semantic_sites: sites.map((s) => s.from),
+    line: expectedLine,
+  });
+}
+const header = zlib.runs[0].answers[0];
+assert.deepEqual(
+  header.control_edges.map((e) => [e.from, e.to, e.polarity]),
+  [
+    [182, 446, "false"],
+    [183, 446, "false"],
+  ],
+);
+assert.equal(header.operations.length, 21);
+assert.equal(header.coverage.dependencies.boundaries.length, 2);
+assert.ok(header.operations.some((op) => op.statement.includes("& #0x1:4")));
+assert.ok(header.operations.some((op) => op.statement.includes("/ #0x1f")));
+const match = sqlite.runs[0].answers[0];
+assert.equal(
+  match.operations.find((op) => op.id === match.direct_uses[0]).kind,
+  "call",
+);
+assert.ok(match.operations.some((op) => op.statement.includes("!= #0x1:4")));
+assert.deepEqual(
+  match.control_edges.map((e) => e.polarity),
+  ["false"],
+);
+const assemblyProofs = [];
+for (const [file, patterns] of [
+  [
+    "relations-zlib-guard.objdump.txt",
+    [/d9ec:.*je\s+ded7/u, /da32:.*jne\s+ded7/u, /0x842108421084211/u],
+  ],
+  [
+    "relations-sqlite-error.objdump.txt",
+    [
+      /65239:.*cmp\s+\$0x1,%ebx/u,
+      /6523c:.*je\s+65281/u,
+      /65284:.*lea.*11dcd8/u,
+    ],
+  ],
+]) {
+  const text = await readFile(join(root, file), "utf8");
+  for (const pattern of patterns) assert.match(text, pattern);
+  assemblyProofs.push({ file, sha256: sha256(text) });
+}
+// Exhaustive ordinary 16-bit header domain. This executes arithmetic, not targets.
+for (let n = 0n; n < 65536n; n++) {
+  const high = (n * 0x842108421084211n) >> 64n;
+  const machineQ = (((n - high) >> 1n) + high) >> 4n;
+  const ssaQ = (((n - n / 31n) >> 1n) + n / 31n) >> 4n;
+  assert.equal(machineQ, n / 31n);
+  assert.equal(ssaQ, machineQ);
+  assert.equal(n !== machineQ * 31n, n % 31n !== 0n);
+}
+const ghidra = await json("relations-ghidra-zlib-retained.bundle.json");
+const flow = ghidra.records.find((r) => r.normalized_result?.native_value_flow)
+  ?.normalized_result.native_value_flow;
+assert.equal(flow.truncated, true);
+assert.equal(flow.operations.length, 3000);
+assert.equal(flow.known_omitted_edges, 239);
+assert.ok(
+  !flow.operations.some((op) =>
+    op.inputs.some((v) => v.constant_hex === "118fc4"),
+  ),
+);
+await writeFile(
+  output,
+  JSON.stringify(
+    {
+      mappings,
+      zlib_header_selected_operations: header.operations.length,
+      sqlite_selected_operations: match.operations.length,
+      assemblyProofs,
+      arithmetic_oracle: {
+        tested_values: 65536,
+        domain: "ordinary 16-bit header value",
+        target_executed: false,
+      },
+      ghidra: {
+        retained_operations: 3000,
+        known_omitted_edges: 239,
+        late_literal_coverage: "unknown due to truncation",
+      },
+      limitations: [
+        "Printed-SSA observations are derived, not runtime behavior.",
+        "Entry state, complete control dependencies, phi predecessor and memory alias bindings remain unknown.",
+        "Source-version agreement does not prove an exact Debian source/build match.",
+      ],
+    },
+    null,
+    2,
+  ),
+  { flag: "wx" },
+);
+console.log(
+  JSON.stringify({
+    output,
+    mapped_errors: mappings.length,
+    arithmetic_values: 65536,
+  }),
+);

package.json

@@ -194,6 +194,7 @@
     "verify:ghidra:swift": "npm run build:cached && node scripts/verify-real-ghidra-swift.mjs",
     "verify:ida": "npm run build:cached && node scripts/verify-real-ida.mjs",
     "verify:ghidra:switch": "npm run build:cached && node scripts/verify-real-ghidra-switch.mjs",
+    "verify:kuna": "npm run build:cached && node scripts/verify-real-kuna.mjs",
     "verify:ghidra:dos": "npm run build:cached && node scripts/verify-real-ghidra-dos.mjs",
     "verify:ghidra:com": "npm run build:cached && node scripts/verify-real-ghidra-com.mjs",
     "verify:ghidra:raw": "npm run build:cached && node scripts/verify-real-ghidra-raw.mjs",
@@ -212,6 +213,7 @@
     "verify:javascript-runtime": "npm run build:cached && node scripts/verify/javascript/runtime-observation.mjs",
     "verify:javascript:digests": "npm run build:cached && node scripts/verify/javascript/digests.mjs",
     "verify:javascript:output": "npm run build:cached && node scripts/verify/javascript/output.mjs",
+    "verify:javascript:module-references": "npm run build:cached && node scripts/verify/javascript/module-references.mjs",
     "verify:application-workflows": "npm run build:cached && node scripts/verify/javascript/application-workflows.mjs",
     "verify:managed": "npm run build:cached && node scripts/verify/managed/conformance.mjs",
     "verify:firmware": "npm run build:cached && node scripts/verify/firmware/analysis.mjs",
@@ -290,8 +292,8 @@
     "verify:solidity:metadata": "npm run build:cached && node scripts/verify-solidity-metadata.mjs",
     "verify:recorded:crash": "npm run build:cached && node scripts/verify-recorded-crash.mjs",
     "mcp-catalog:check:built": "node scripts/generate-mcp-tool-catalog.mjs --check",
-    "compile": "node scripts/clean-build-output.mjs && tsc -p tsconfig.build.json && node scripts/bundle-runtime.mjs",
-    "compile:termux": "node scripts/clean-build-output.mjs && node --max-old-space-size=3072 node_modules/typescript-termux/lib/tsc.js -p tsconfig.build.json && node scripts/bundle-runtime.mjs",
+    "compile": "node scripts/clean-build-output.mjs && tsc -p tsconfig.build.json && node scripts/record-catalog-digests.mjs && node scripts/bundle-runtime.mjs",
+    "compile:termux": "node scripts/clean-build-output.mjs && node --max-old-space-size=3072 node_modules/typescript-termux/lib/tsc.js -p tsconfig.build.json && node scripts/record-catalog-digests.mjs && node scripts/bundle-runtime.mjs",
     "artifacts:mcp-catalog": "node scripts/generate-mcp-tool-catalog.mjs",
     "artifacts:skills": "node scripts/generate-skill-metadata.mjs",
     "artifacts:product-catalog": "node scripts/generate-product-catalog.mjs",

scripts/ci/scopes.mjs

@@ -138,6 +138,7 @@ export const SCOPES = {
     "src/domain/javascript/javascriptRuntimeStaticCandidates.ts",
     "tests/boundary/filesystem/webScriptManifestPaths.test.ts",
     "tests/boundary/process/ProcessEvidence.host.test.ts",
+    "tests/boundary/process/packageNpmInvocation.test.ts",
     "tests/boundary/process/windowsOutputCapture.test.ts",
     "tests/acceptance/webModuleCli.test.ts",
     "tests/acceptance/webSourceLocationCli.test.ts",

scripts/create-ghidra-windows-fixture.mjs

@@ -3,42 +3,52 @@ import { dirname, resolve } from "node:path";
 import { fileURLToPath } from "node:url";
 import { writeWindowsGhidraByteSearchFixture } from "./lib/ghidra-windows-byte-search.mjs";
 
+import {
+  WINDOWS_GHIDRA_FIXTURE_ARCHITECTURES,
+  windowsGhidraFixtureOptions,
+} from "./lib/ghidra-windows-fixture-options.mjs";
+
 const root = resolve(dirname(fileURLToPath(import.meta.url)), "..");
 // Source-owned static fixtures: no compiler, target loading or execution.
-for (const architecture of ["x86_64", "x86"]) {
+for (const architecture of WINDOWS_GHIDRA_FIXTURE_ARCHITECTURES) {
   for (const dll of [false, true]) {
     const x86 = architecture === "x86";
-    const output = resolve(
-      root,
-      "build",
-      "fixtures",
-      `rea-ghidra-windows${x86 ? "-x86" : ""}.${dll ? "dll" : "exe"}`,
-    );
+    const arm = architecture === "arm";
+    const arm64 = architecture === "arm64";
+    const fixture = windowsGhidraFixtureOptions([
+      ...(architecture === "x86_64" ? [] : [`--${architecture}`]),
+      ...(dll ? ["--dll"] : []),
+    ]);
+    const pe32 = fixture.pe32;
+    const output = resolve(root, "build", "fixtures", fixture.filename);
     const bytes = Buffer.alloc(dll ? 1024 : 1536);
     const peOffset = 0x80;
     const optionalHeader = peOffset + 24;
-    const optionalHeaderSize = x86 ? 0xe0 : 0xf0;
+    const optionalHeaderSize = pe32 ? 0xe0 : 0xf0;
     const sectionTable = optionalHeader + optionalHeaderSize;
-    const directories = optionalHeader + (x86 ? 96 : 112);
+    const directories = optionalHeader + (pe32 ? 96 : 112);
 
     bytes.write("MZ", 0, "ascii");
     bytes.writeUInt32LE(peOffset, 0x3c);
     bytes.write("PE\0\0", peOffset, "binary");
-    bytes.writeUInt16LE(x86 ? 0x14c : 0x8664, peOffset + 4);
+    // The fixture descriptor owns COFF machine, width and function coordinates.
+    bytes.writeUInt16LE(fixture.machine, peOffset + 4);
     bytes.writeUInt16LE(dll ? 1 : 2, peOffset + 6);
     bytes.writeUInt16LE(optionalHeaderSize, peOffset + 20);
     bytes.writeUInt16LE(
-      (x86 ? 0x102 : 0x22) | (dll ? 0x2000 : 0),
+      (pe32 ? 0x102 : 0x22) | (dll ? 0x2000 : 0),
       peOffset + 22,
     );
 
-    bytes.writeUInt16LE(x86 ? 0x10b : 0x20b, optionalHeader);
+    // ARM64 PE uses the PE32+ optional header (magic 0x20b), like x86-64.
+    bytes.writeUInt16LE(pe32 ? 0x10b : 0x20b, optionalHeader);
     bytes.writeUInt32LE(0x200, optionalHeader + 4);
     if (!dll) bytes.writeUInt32LE(0x200, optionalHeader + 8);
-    bytes.writeUInt32LE(dll ? 0 : 0x1000, optionalHeader + 16);
+    bytes.writeUInt32LE(dll ? 0 : arm ? 0x1001 : 0x1000, optionalHeader + 16);
     bytes.writeUInt32LE(0x1000, optionalHeader + 20);
-    if (x86) bytes.writeUInt32LE(0x400000, optionalHeader + 28);
-    else bytes.writeBigUInt64LE(0x1_4000_0000n, optionalHeader + 24);
+    if (pe32)
+      bytes.writeUInt32LE(Number(fixture.imageBase), optionalHeader + 28);
+    else bytes.writeBigUInt64LE(fixture.imageBase, optionalHeader + 24);
     bytes.writeUInt32LE(0x1000, optionalHeader + 32);
     bytes.writeUInt32LE(0x200, optionalHeader + 36);
     bytes.writeUInt16LE(6, optionalHeader + 40);
@@ -46,8 +56,8 @@ for (const architecture of ["x86_64", "x86"]) {
     bytes.writeUInt32LE(dll ? 0x2000 : 0x3000, optionalHeader + 56);
     bytes.writeUInt32LE(0x200, optionalHeader + 60);
     bytes.writeUInt16LE(3, optionalHeader + 68);
-    bytes.writeUInt16LE(x86 ? 0x8140 : 0x8160, optionalHeader + 70);
-    if (x86) {
+    bytes.writeUInt16LE(pe32 ? 0x8140 : 0x8160, optionalHeader + 70);
+    if (pe32) {
       bytes.writeUInt32LE(0x10_0000, optionalHeader + 72);
       bytes.writeUInt32LE(0x1000, optionalHeader + 76);
       bytes.writeUInt32LE(0x10_0000, optionalHeader + 80);
@@ -69,18 +79,52 @@ for (const architecture of ["x86_64", "x86"]) {
     bytes.writeUInt32LE(0x6000_0020, sectionTable + 36);
 
     // EXE entry returns zero. DLL caller adds one to the callee's 42.
-    bytes.set(
-      dll
-        ? [0xe8, 0x0b, 0, 0, 0, 0x83, 0xc0, 1, 0xc3]
-        : [0xe8, 0x0b, 0, 0, 0, 0xe8, 0x16, 0, 0, 0, 0x31, 0xc0, 0xc3],
-      0x200,
-    );
-    bytes.set(
-      x86 && !dll
-        ? [0xb8, 0x2a, 0, 0, 0, 0xe8, 0x66, 0, 0, 0, 0xc3]
-        : [0xb8, 0x2a, 0, 0, 0, 0xc3],
-      0x210,
-    );
+    if (arm) {
+      // ARMNT uses Thumb instructions and low-bit-tagged PE entry/export RVAs.
+      // PUSH keeps SP aligned and preserves LR across BL from 0x1002 to 0x1020.
+      bytes.set(
+        [
+          0x10,
+          0xb5,
+          0x00,
+          0xf0,
+          0x0d,
+          0xf8,
+          dll ? 0x01 : 0x00,
+          dll ? 0x30 : 0x20,
+          0x10,
+          0xbd,
+        ],
+        0x200,
+      );
+      bytes.set([0x2a, 0x20, 0x70, 0x47], 0x220);
+    } else if (arm64) {
+      // Preserve the caller's frame/link registers across BL. The callee
+      // starts at RVA 0x1020, outside the five-instruction caller.
+      const instructions = [
+        0xa9bf7bfd, // STP X29, X30, [SP, #-16]!
+        0x94000007, // BL +0x1c from RVA 0x1004 to RVA 0x1020
+        dll ? 0x11000400 : 0x52800000, // ADD W0,W0,#1 / MOV W0,#0
+        0xa8c17bfd, // LDP X29, X30, [SP], #16
+        0xd65f03c0, // RET
+      ];
+      for (const [index, instruction] of instructions.entries())
+        bytes.writeUInt32LE(instruction, 0x200 + index * 4);
+      bytes.set([0x40, 0x05, 0x80, 0x52, 0xc0, 0x03, 0x5f, 0xd6], 0x220);
+    } else {
+      bytes.set(
+        dll
+          ? [0xe8, 0x0b, 0, 0, 0, 0x83, 0xc0, 1, 0xc3]
+          : [0xe8, 0x0b, 0, 0, 0, 0xe8, 0x16, 0, 0, 0, 0x31, 0xc0, 0xc3],
+        0x200,
+      );
+      bytes.set(
+        x86 && !dll
+          ? [0xb8, 0x2a, 0, 0, 0, 0xe8, 0x66, 0, 0, 0, 0xc3]
+          : [0xb8, 0x2a, 0, 0, 0, 0xc3],
+        0x210,
+      );
+    }
 
     if (x86 && !dll) {
       // A statically analyzed Borland-style SEH registration whose handler
@@ -149,19 +193,31 @@ for (const architecture of ["x86_64", "x86"]) {
             "ffd7", // CALL EDI: unknown target.
             "c3",
           ]
-        : [
-            "488d15d90f0000", // LEA RDX, [RIP + displacement]: DATA.
-            "8b05d30f0000", // MOV EAX, [RIP + displacement]: READ.
-            "8905d10f0000", // MOV [RIP + displacement], EAX: WRITE.
-            "488d15d60f0000", // Indexed base, unknown RCX.
-            "85db", // TEST EBX, EBX: two candidate bases.
-            "7407", // JZ over the alternate base.
-            "488d15d30f0000", // LEA RDX, alternate base.
-            "c6040a01", // MOV byte [RDX + RCX], 1.
-            "41ffd0", // CALL R8: unknown target.
-            "c3",
-          ];
-      bytes.set(Buffer.from(referenceInstructions.join(""), "hex"), 0x220);
+        : arm
+          ? ["7047"] // Thumb return; x86 reference-flow controls do not apply.
+          : arm64
+            ? [
+                "010000b0", // ADRP X1, .data page (RVA 0x2000): DATA.
+                "200040b9", // LDR W0, [X1]: READ.
+                "200000b9", // STR W0, [X1]: WRITE.
+                "c0035fd6", // RET.
+              ]
+            : [
+                "488d15d90f0000", // LEA RDX, [RIP + displacement]: DATA.
+                "8b05d30f0000", // MOV EAX, [RIP + displacement]: READ.
+                "8905d10f0000", // MOV [RIP + displacement], EAX: WRITE.
+                "488d15d60f0000", // Indexed base, unknown RCX.
+                "85db", // TEST EBX, EBX: two candidate bases.
+                "7407", // JZ over the alternate base.
+                "488d15d30f0000", // LEA RDX, alternate base.
+                "c6040a01", // MOV byte [RDX + RCX], 1.
+                "41ffd0", // CALL R8: unknown target.
+                "c3",
+              ];
+      bytes.set(
+        Buffer.from(referenceInstructions.join(""), "hex"),
+        arm || arm64 ? 0x230 : 0x220,
+      );
     }
 
     if (dll) {
@@ -176,8 +232,8 @@ for (const architecture of ["x86_64", "x86"]) {
       bytes.writeUInt32LE(0x1080, exports + 28);
       bytes.writeUInt32LE(0x1088, exports + 32);
       bytes.writeUInt32LE(0x1090, exports + 36);
-      bytes.writeUInt32LE(0x1000, 0x280);
-      bytes.writeUInt32LE(0x1010, 0x284);
+      bytes.writeUInt32LE(arm ? 0x1001 : 0x1000, 0x280);
+      bytes.writeUInt32LE(fixture.calleeRva + (arm ? 1 : 0), 0x284);
       bytes.writeUInt32LE(0x1120, 0x288);
       bytes.writeUInt32LE(0x1140, 0x28c);
       bytes.writeUInt16LE(0, 0x290);
@@ -191,6 +247,6 @@ for (const architecture of ["x86_64", "x86"]) {
 
     await mkdir(dirname(output), { recursive: true });
     await writeFile(output, bytes);
-    if (!x86 && !dll) process.stdout.write(`${output}\n`);
+    if (architecture === "x86_64" && !dll) process.stdout.write(`${output}\n`);
   }
 }

scripts/fixtures/browser-verifier-site.mjs

@@ -12,13 +12,22 @@ export async function startBrowserVerifierSite() {
       return;
     }
     const requestUrl = new URL(request.url ?? "/", "http://127.0.0.1");
+    if (requestUrl.pathname === "/scenario-request-language") {
+      response.setHeader("content-type", "application/json");
+      response.setHeader("cache-control", "no-store");
+      response.end(JSON.stringify(request.headers["accept-language"] ?? null));
+      return;
+    }
     if (requestUrl.pathname === "/scenario-environment") {
       const requestedRun = requestUrl.searchParams.get("run");
       const run = ["A", "B", "C"].includes(requestedRun)
         ? requestedRun
         : "default";
       response.setHeader("content-type", "text/html");
-      response.end(`<!doctype html><html><body data-run="${run}"><pre id="environment"></pre>
+      const requestLanguage = encodeURIComponent(
+        JSON.stringify(request.headers["accept-language"] ?? null),
+      );
+      response.end(`<!doctype html><html><body data-run="${run}" data-request-language="${requestLanguage}"><pre id="environment"></pre><pre id="language"></pre>
         <button id="refresh-environment">Refresh environment</button><script>
         const refresh = () => document.querySelector('#environment').textContent = JSON.stringify({
           timezone: Intl.DateTimeFormat().resolvedOptions().timeZone,
@@ -26,6 +35,10 @@ export async function startBrowserVerifierSite() {
           dpr: devicePixelRatio, width: innerWidth, height: innerHeight
         });
         document.querySelector('#refresh-environment').onclick = refresh;
+        document.querySelector('#language').textContent = JSON.stringify({
+          language: navigator.language, languages: [...navigator.languages],
+          request_language: JSON.parse(decodeURIComponent(document.body.dataset.requestLanguage))
+        });
         window.releaseScenario = () => {
           const release = document.createElement('span');
           release.id = 'release-' + document.body.dataset.run;

scripts/fixtures/tokenizer-family-wrapper.py

@@ -0,0 +1,36 @@
+#!/usr/bin/env python3
+"""POSIX fault fixture for the optional module-reference token counter.
+
+Use as --tokenizer-python with an explicit REA_TOKENIZER_PROBE_RECORD path.
+It deliberately ignores the counter arguments, forks a detached helper that
+ignores SIGTERM, and stalls. The production owned-command supervisor must
+terminate the verified family. Recorded PIDs are observations, not authority
+to signal a process; verification also checks the owned scope after exit.
+"""
+
+import json
+import os
+from pathlib import Path
+import signal
+import time
+
+
+def main():
+    record = Path(os.environ["REA_TOKENIZER_PROBE_RECORD"])
+    child = os.fork()
+    if child == 0:
+        os.setsid()
+        signal.signal(signal.SIGTERM, signal.SIG_IGN)
+        record.write_text(json.dumps({
+            "pid": os.getpid(),
+            "group": os.getpgrp(),
+            "parent": os.getppid(),
+            "run_id": os.environ.get("REA_PROCESS_RUN_ID"),
+            "detached": True,
+            "ignores_sigterm": True,
+        }) + "\n", encoding="utf-8")
+    time.sleep(30)
+
+
+if __name__ == "__main__":
+    main()

scripts/lib/browser-scenario-environment-e2e.mjs

@@ -11,6 +11,7 @@ import { browserScenarioSchema } from "../../dist/domain/browserScenario.js";
 import { AnalysisCancelledError } from "../../dist/domain/analysisErrorCore.js";
 import { runScenarioCli } from "./browser-scenario-verifier.mjs";
 import { requireMcpEvidenceResult } from "./mcp-verifier-results.mjs";
+import { closeVerifierResources } from "./verifier-cleanup.mjs";
 
 const expected = {
   timezone: "Pacific/Honolulu",
@@ -96,8 +97,32 @@ const assertCapture = (capture, values = expected) => {
   }
 };
 
+const assertCallerLanguage = (capture, baseline) => {
+  assert.ok(
+    capture.limitations.some((value) =>
+      value.includes("Attached locale fr-FR applies to Intl formatting only"),
+    ),
+    "Attached capture must identify its page/request language limitation",
+  );
+  for (const step of capture.steps) {
+    const text = step.artifacts.dom.value.text;
+    const observed = /<pre id="language">([^<]+)<\/pre>/u.exec(text);
+    assert.ok(
+      observed,
+      "DOM omitted the navigator/request language observations",
+    );
+    assert.deepEqual(JSON.parse(observed[1]), baseline);
+  }
+};
+
 /** Verify actual attached-page emulation and restoration across scenario outcomes. */
 export async function verifyScenarioEnvironment(endpoint, targetId, origin) {
+  const languageExpression = `(async () => JSON.stringify({
+    language: navigator.language, languages: [...navigator.languages],
+    request_language: await (await fetch(
+      ${JSON.stringify(`${origin}/scenario-request-language`)}, { cache: "no-store" }
+    )).json()
+  }))()`;
   const targets = await (await fetch(`${endpoint}/json/list`)).json();
   const target = targets.find(({ id }) => id === targetId);
   assert.ok(target, "External fixture target is missing");
@@ -105,28 +130,38 @@ export async function verifyScenarioEnvironment(endpoint, targetId, origin) {
     target.webSocketDebuggerUrl,
     "capture_browser_scenario",
   );
-  const readEnvironment = async () => {
+  const readEnvironment = async (expressionToRead = expression) => {
     const value = await connection.send("Runtime.evaluate", {
-      expression,
+      expression: expressionToRead,
       returnByValue: true,
+      awaitPromise: true,
     });
     assert.equal(value.result.type, "string");
     return JSON.parse(value.result.value);
   };
-  const baseline = await readEnvironment();
-  const scenario = environmentScenario({
-    endpoint,
-    targetId,
-    origin,
-    values: expected,
-  });
-  const assertRestored = async () => {
-    assert.deepEqual(await readEnvironment(), baseline);
-    const remaining = await (await fetch(`${endpoint}/json/list`)).json();
-    assert.ok(remaining.some(({ id }) => id === targetId));
-  };
+  const provider = createBrowserScenarioProvider(process.env);
+  let verificationError;
   try {
-    assertCapture((await runScenarioCli(scenario)).normalized_result);
+    const baseline = await readEnvironment();
+    const callerLanguage = await readEnvironment(languageExpression);
+    const scenario = environmentScenario({
+      endpoint,
+      targetId,
+      origin,
+      values: expected,
+    });
+    const assertRestored = async () => {
+      assert.deepEqual(await readEnvironment(), baseline);
+      assert.deepEqual(
+        await readEnvironment(languageExpression),
+        callerLanguage,
+      );
+      const remaining = await (await fetch(`${endpoint}/json/list`)).json();
+      assert.ok(remaining.some(({ id }) => id === targetId));
+    };
+    const cliCapture = (await runScenarioCli(scenario)).normalized_result;
+    assertCapture(cliCapture);
+    assertCallerLanguage(cliCapture, callerLanguage);
     await assertRestored();
     const transport = new StdioClientTransport({
       command: process.execPath,
@@ -144,15 +179,15 @@ export async function verifyScenarioEnvironment(endpoint, targetId, origin) {
         ({ name }) => name === "capture_browser_scenario",
       );
       assert.ok(definition, "Scenario tool is absent from the current catalog");
-      assertCapture(
-        requireMcpEvidenceResult(
-          await client.callTool(
-            { name: "capture_browser_scenario", arguments: scenario },
-            { toolDefinition: definition },
-          ),
-          "capture_browser_scenario",
+      const mcpCapture = requireMcpEvidenceResult(
+        await client.callTool(
+          { name: "capture_browser_scenario", arguments: scenario },
+          { toolDefinition: definition },
         ),
+        "capture_browser_scenario",
       );
+      assertCapture(mcpCapture);
+      assertCallerLanguage(mcpCapture, callerLanguage);
       await verifyConcurrentMcpCapture({
         client,
         definition,
@@ -167,7 +202,6 @@ export async function verifyScenarioEnvironment(endpoint, targetId, origin) {
       await transport.close();
     }
     await assertRestored();
-    const provider = createBrowserScenarioProvider(process.env);
     const initializationFailure = await provider.captureScenario({
       ...scenario,
       environment: { ...scenario.environment, timezone: "REA/Invalid" },
@@ -199,13 +233,21 @@ export async function verifyScenarioEnvironment(endpoint, targetId, origin) {
       stdio_mcp: true,
       observed: expected,
       restored: baseline,
+      caller_language_preserved: callerLanguage,
+      attached_locale_limitation: true,
       initialization_failure_cleanup: true,
       action_failure_cleanup: true,
       cancellation_cleanup: true,
       external_target_preserved: true,
     };
+  } catch (cause) {
+    verificationError = cause;
+    throw cause;
   } finally {
-    await connection.close();
+    await closeVerifierResources(
+      [() => provider.close(), () => connection.close()],
+      verificationError,
+    );
   }
 }
 
@@ -356,7 +398,11 @@ const releaseScenario = async (connection) => {
   });
 };
 
-async function verifyCancelledEnvironment(provider, connection, scenario) {
+export async function verifyCancelledEnvironment(
+  provider,
+  connection,
+  scenario,
+) {
   const controller = new AbortController();
   const priorSnapshot = await readScenarioSnapshot(connection);
   const pending = provider.captureScenario(
@@ -378,9 +424,15 @@ async function verifyCancelledEnvironment(provider, connection, scenario) {
     await settlement;
   }
   const cancelled = await pending;
-  assert.ok(
-    !cancelled.ok ||
+  if (!cancelled.ok) {
+    if (!(cancelled.error instanceof AnalysisCancelledError))
+      throw cancelled.error;
+    assert.equal(cancelled.error.cleanupIncomplete, false);
+  } else {
+    assert.ok(
       cancelled.value.steps.some(({ status }) => status === "cancelled"),
-    "Cancellation unexpectedly completed every action",
-  );
+      "Cancellation unexpectedly completed every action",
+    );
+    assert.equal(cancelled.value.browser.cleanup, "disconnected-external");
+  }
 }

scripts/lib/browser-scenario-storage-e2e.mjs

@@ -10,6 +10,7 @@ import {
   runScenarioCli,
   scenarioProfiles,
 } from "./browser-scenario-verifier.mjs";
+import { closeVerifierResources } from "./verifier-cleanup.mjs";
 
 const scenarioFor = (browser, origin) =>
   browserScenarioSchema.parse({
@@ -299,6 +300,7 @@ const verifyConnectedStorage = async (endpoint, targetId, origin) => {
     target.webSocketDebuggerUrl,
     "capture_browser_scenario",
   );
+  let failure;
   try {
     await assertStorageKeyPartition(observer, origin);
     const result = await runScenarioCli(scenario);
@@ -313,11 +315,14 @@ const verifyConnectedStorage = async (endpoint, targetId, origin) => {
     assert.equal(capture.browser.cleanup, "disconnected-external");
     await verifyCallerDebuggerPause(observer, origin, scenario);
     await verifyCancelledStorage(observer, endpoint, targetId, scenario);
+  } catch (cause) {
+    failure = cause;
+    throw cause;
   } finally {
-    await raceWithTimeout(restoreTarget(observer, target.url), 1_000).catch(
-      () => undefined,
+    await closeVerifierResources(
+      [() => restoreTarget(observer, target.url), () => observer.close()],
+      failure,
     );
-    await raceWithTimeout(observer.close(), 1_000).catch(() => undefined);
   }
 };
 
@@ -503,7 +508,8 @@ const verifyCallerDebuggerPause = async (caller, origin, scenario) => {
     ],
   });
   let settled = false;
-  const pending = createBrowserScenarioProvider(process.env)
+  const provider = createBrowserScenarioProvider(process.env);
+  const pending = provider
     .captureScenario(debuggerScenario, { signal: controller.signal })
     .finally(() => {
       settled = true;
@@ -586,9 +592,10 @@ const verifyCallerDebuggerPause = async (caller, origin, scenario) => {
     });
   } finally {
     unsubscribe();
-    await raceWithTimeout(caller.send("Debugger.disable"), 1_000).catch(
-      () => undefined,
-    );
+    await closeVerifierResources([
+      () => caller.send("Debugger.disable"),
+      () => provider.close(),
+    ]);
   }
 };
 
@@ -615,38 +622,48 @@ const verifyCancelledStorage = async (
     expression: "performance.timeOrigin",
     returnByValue: true,
   });
-  const pending = createBrowserScenarioProvider(process.env).captureScenario(
-    cancelledScenario,
-    { signal: controller.signal },
-  );
-  await waitForNewDocument(
-    observer,
-    "/storage-main",
-    priorDocument.result.value,
-  );
-  const state = await observer.send("Runtime.evaluate", {
-    expression:
-      "JSON.parse(document.querySelector('#main-report').textContent)",
-    returnByValue: true,
+  const provider = createBrowserScenarioProvider(process.env);
+  const pending = provider.captureScenario(cancelledScenario, {
+    signal: controller.signal,
   });
-  assert.deepEqual(state.result.value, {
-    local: "main-initial",
-    session: "main-session-initial",
-    removed: "main-remove-seed",
-    empty: "main-empty-seed",
-  });
-  controller.abort(new Error("cancel storage seed scenario"));
-  const result = await pending;
-  assert.ok(
-    !result.ok ||
-      result.value.steps.some(({ status }) => status === "cancelled"),
-    "Cancellation unexpectedly completed every scenario step",
-  );
-  const targets = await (await fetch(`${endpoint}/json/list`)).json();
-  assert.ok(
-    targets.some(({ id }) => id === targetId),
-    "Cancelled connect-mode storage cleanup closed the external target",
-  );
+  let failure;
+  try {
+    await waitForNewDocument(
+      observer,
+      "/storage-main",
+      priorDocument.result.value,
+    );
+    const state = await observer.send("Runtime.evaluate", {
+      expression:
+        "JSON.parse(document.querySelector('#main-report').textContent)",
+      returnByValue: true,
+    });
+    assert.deepEqual(state.result.value, {
+      local: "main-initial",
+      session: "main-session-initial",
+      removed: "main-remove-seed",
+      empty: "main-empty-seed",
+    });
+    controller.abort(new Error("cancel storage seed scenario"));
+    const result = await pending;
+    if (result.ok)
+      assert.ok(
+        result.value.steps.some(({ status }) => status === "cancelled"),
+        "Cancellation unexpectedly completed every scenario step",
+      );
+    else assert.equal(result.error._tag, "AnalysisCancelledError");
+    const targets = await (await fetch(`${endpoint}/json/list`)).json();
+    assert.ok(
+      targets.some(({ id }) => id === targetId),
+      "Cancelled connect-mode storage cleanup closed the external target",
+    );
+  } catch (cause) {
+    failure = cause;
+    throw cause;
+  } finally {
+    controller.abort(new Error("cancel failed storage verification"));
+    await closeVerifierResources([() => provider.close()], failure);
+  }
 };
 
 const waitForNewDocument = async (connection, path, priorTimeOrigin) => {
@@ -669,15 +686,38 @@ const waitForNewDocument = async (connection, path, priorTimeOrigin) => {
 };
 
 const restoreTarget = async (connection, url) => {
-  await connection.send("Page.navigate", { url });
-  const deadline = Date.now() + 10_000;
-  while (Date.now() < deadline) {
-    const result = await connection.send("Runtime.evaluate", {
-      expression: "location.href",
-      returnByValue: true,
-    });
-    if (result.result.value === url) return;
-    await new Promise((resolve) => setTimeout(resolve, 25));
+  const loaded = new Set();
+  let loaderId;
+  let resolveLoaded;
+  const load = new Promise((resolve) => {
+    resolveLoaded = resolve;
+  });
+  const unsubscribe = connection.onEvent((event) => {
+    if (
+      event.method !== "Page.lifecycleEvent" ||
+      event.params?.name !== "load" ||
+      typeof event.params.loaderId !== "string"
+    )
+      return;
+    loaded.add(event.params.loaderId);
+    if (event.params.loaderId === loaderId) resolveLoaded();
+  });
+  try {
+    await connection.send("Page.setLifecycleEventsEnabled", { enabled: true });
+    const navigation = await connection.send("Page.navigate", { url });
+    assert.equal(navigation.errorText, undefined);
+    assert.equal(typeof navigation.loaderId, "string");
+    loaderId = navigation.loaderId;
+    // A URL changes at commit, before old child frames have been retired.
+    // Do not hand the shared page to the next verifier until this load ends.
+    if (!loaded.has(loaderId))
+      await raceWithTimeout(load, 10_000, () => {
+        throw new Error(
+          "External browser did not finish restoring its document",
+        );
+      });
+  } finally {
+    unsubscribe();
+    await connection.send("Page.setLifecycleEventsEnabled", { enabled: false });
   }
-  throw new Error("External browser did not return to its original URL");
 };

scripts/lib/catalog-builders.mjs

@@ -218,6 +218,13 @@ export const providerCatalog = (sources) => {
       identity: sources.idaProvider.IDA_PROVIDER_IDENTITY,
       contracts: declaredContracts("ida", sources.idaProvider.IDA_OPERATIONS),
     },
+    {
+      identity: sources.kunaProvider.KUNA_PROVIDER_IDENTITY,
+      contracts: declaredContracts(
+        "kuna",
+        sources.kunaProvider.KUNA_OPERATIONS,
+      ),
+    },
     {
       identity: sources.nativeProvider.NATIVE_MACOS_PROVIDER_IDENTITY,
       contracts: sources.nativeContracts.NATIVE_TOOL_CONTRACTS,

scripts/lib/catalog-core.mjs

@@ -109,6 +109,7 @@ const SOURCE_PATHS = {
   hopperProvider: "dist/hopper/HopperProviderCapabilities.js",
   ghidraProvider: "dist/ghidra/GhidraProviderCapabilities.js",
   idaProvider: "dist/ida/IdaProviderCapabilities.js",
+  kunaProvider: "dist/kuna/KunaProviderCapabilities.js",
   nativeProvider: "dist/native/NativeMacOSProviderMetadata.js",
   artifactProviders: "dist/application/InvestigationProviders.js",
   browserIdentities: "dist/browser/providerIdentities.js",

scripts/lib/ghidra-windows-byte-search.mjs

@@ -18,13 +18,12 @@ export function writeWindowsGhidraByteSearchFixture(bytes) {
 export async function verifyWindowsGhidraByteSearch({
   invoke,
   sourceBytes,
-  architecture,
+  imageBase,
   sourceOwnedFixture = true,
   fallbackAddress,
   fallbackFileOffset,
   runCliPage,
 }) {
-  const imageBase = architecture === "x86" ? 0x400000n : 0x140000000n;
   const query = sourceOwnedFixture
     ? {
         pattern: WINDOWS_GHIDRA_BYTE_SEARCH_FIXTURE.pattern,

scripts/lib/ghidra-windows-fixture-options.d.mts

@@ -0,0 +1,21 @@
+export const WINDOWS_GHIDRA_FIXTURE_ARCHITECTURES: readonly [
+  "x86_64",
+  "x86",
+  "arm",
+  "arm64",
+];
+export const WINDOWS_GHIDRA_FIXTURE_FLAGS: readonly string[];
+
+/** Select one architecture without interpreting positional paths as flags. */
+export function windowsGhidraFixtureOptions(arguments_: readonly string[]): {
+  architecture: (typeof WINDOWS_GHIDRA_FIXTURE_ARCHITECTURES)[number];
+  dll: boolean;
+  pe32: boolean;
+  imageBase: bigint;
+  calleeRva: number;
+  machine: number;
+  filename: string;
+  languageId: string;
+  callerAddress: string;
+  calleeAddress: string;
+};

scripts/lib/ghidra-windows-fixture-options.mjs

@@ -0,0 +1,50 @@
+/** Source-owned PE fixtures; these are encoded bytes, not compiled programs. */
+/** @type {readonly ["x86_64", "x86", "arm", "arm64"]} */
+export const WINDOWS_GHIDRA_FIXTURE_ARCHITECTURES = Object.freeze([
+  "x86_64",
+  "x86",
+  "arm",
+  "arm64",
+]);
+
+export const WINDOWS_GHIDRA_FIXTURE_FLAGS = Object.freeze([
+  "--x86",
+  "--arm",
+  "--arm64",
+  "--dll",
+]);
+
+/** Select one architecture without interpreting positional paths as flags. */
+/** @param {readonly string[]} arguments_ */
+export const windowsGhidraFixtureOptions = (arguments_) => {
+  const selected = WINDOWS_GHIDRA_FIXTURE_ARCHITECTURES.filter(
+    (architecture) =>
+      architecture !== "x86_64" && arguments_.includes(`--${architecture}`),
+  );
+  if (selected.length > 1)
+    throw new Error("Choose one Windows PE fixture architecture.");
+  const architecture = selected[0] ?? "x86_64";
+  const dll = arguments_.includes("--dll");
+  const pe32 = architecture === "x86" || architecture === "arm";
+  const imageBase = pe32 ? 0x400000n : 0x140000000n;
+  const calleeRva = architecture.startsWith("arm") ? 0x1020 : 0x1010;
+  return {
+    architecture,
+    dll,
+    pe32,
+    imageBase,
+    calleeRva,
+    machine: { x86: 0x14c, x86_64: 0x8664, arm: 0x1c4, arm64: 0xaa64 }[
+      architecture
+    ],
+    filename: `rea-ghidra-windows${architecture === "x86_64" ? "" : `-${architecture}`}.${dll ? "dll" : "exe"}`,
+    languageId:
+      architecture === "arm"
+        ? "ARM:LE:32:v8"
+        : architecture === "arm64"
+          ? "AARCH64:LE:64:v8A"
+          : `x86:LE:${pe32 ? 32 : 64}:default`,
+    callerAddress: `0x${(imageBase + 0x1000n).toString(16)}`,
+    calleeAddress: `0x${(imageBase + BigInt(calleeRva)).toString(16)}`,
+  };
+};

scripts/lib/kuna-native-reference-verifier.mjs

@@ -0,0 +1,46 @@
+import assert from "node:assert/strict";
+import { realpath } from "node:fs/promises";
+
+import { runKunaCommand } from "../../dist/kuna/KunaCommand.js";
+import { inspectKunaInstallation } from "../../dist/kuna/KunaInstallation.js";
+import { KUNA_XREF_OUTPUT_BYTES } from "../../dist/kuna/KunaReferenceFiles.js";
+
+/** Independent projection of native exact-target rows, bypassing REA's parser. */
+export const nativeKunaIncomingSites = async ({
+  executable,
+  cacheRoot,
+  workspace,
+  binary,
+  address,
+  retain,
+}) => {
+  const installed = await inspectKunaInstallation({
+    REA_KUNA_COMMAND: executable,
+    REA_KUNA_CACHE_DIR: cacheRoot,
+  });
+  assert.ok(installed.ok, "Native reference oracle could not inspect Kuna");
+  const input = await realpath(binary);
+  const timeoutMs = installed.value.configuration.functionTimeoutMs;
+  const outcome = await runKunaCommand({
+    installation: installed.value,
+    arguments: ["xrefs", input, "--to", address, "--json"],
+    workspace,
+    operation: "verify:kuna-native-xrefs",
+    timeoutMs,
+    reportedTimeoutMs: timeoutMs,
+    outputBytes: KUNA_XREF_OUTPUT_BYTES,
+    signal: new AbortController().signal,
+  });
+  if (outcome.kind === "retained") retain(outcome);
+  if (outcome.kind !== "ok") throw outcome.error;
+  const document = JSON.parse(outcome.snapshot.stdout.text);
+  assert.equal(document.binary, input);
+  assert.equal(document.direction, "to");
+  assert.equal(document.target.address_hex, address);
+  assert.equal(document.count, document.xrefs.length);
+  const sites = document.xrefs
+    .filter((row) => row.to_address_hex === address)
+    .map((row) => row.from_address_hex);
+  assert.ok(sites.every((site) => /^0x[0-9a-f]+$/u.test(site)));
+  return [...new Set(sites)].sort();
+};

scripts/lib/kuna-reference-verifier.mjs

@@ -0,0 +1,109 @@
+import assert from "node:assert/strict";
+import { readdir } from "node:fs/promises";
+import { join } from "node:path";
+
+import { combineFunctionRelationshipCoverage } from "../../dist/domain/functionCallCoverage.js";
+
+const entries = async (path) => {
+  try {
+    return (await readdir(path)).sort();
+  } catch (cause) {
+    if (cause.code === "ENOENT") return [];
+    throw cause;
+  }
+};
+
+/** Verify selected public reference answers without requesting source text. */
+export const verifyKunaReferences = async ({
+  call,
+  cacheRoot,
+  name,
+  address,
+  expectedCaller,
+  nativeIncoming,
+}) => {
+  const before = await Promise.all([
+    entries(join(cacheRoot, "projects")),
+    entries(join(cacheRoot, "staging")),
+  ]);
+  const callers = await call("procedure_callers", { procedure: address });
+  const callees = await call("procedure_callees", { procedure: address });
+  const incoming = await call("xrefs", { address });
+  for (const [label, result] of [
+    ["callers", callers],
+    ["callees", callees],
+    ["xrefs", incoming],
+  ]) {
+    assert.ok(
+      Array.isArray(result.value),
+      `${name} ${label} omitted its address list`,
+    );
+    assert.equal(
+      new Set(result.value).size,
+      result.value.length,
+      `${label} repeats an address`,
+    );
+    assert.ok(
+      result.value.every((value) =>
+        /^0x(?:0|[1-9a-f][0-9a-f]{0,15})$/u.test(value),
+      ),
+      `${label} returned a noncanonical u64 address`,
+    );
+    assert.equal(result.structured.provider.id, "kuna");
+    const source = result.structured.raw_result.references;
+    assert.match(source.sha256, /^[0-9a-f]{64}$/u);
+    assert.ok(source.bytes > 0);
+  }
+  let composed;
+  if (expectedCaller !== undefined) {
+    assert.ok(
+      callers.value.includes(expectedCaller),
+      `${name} lost its source-owned caller`,
+    );
+    assert.ok(
+      incoming.value.length > 0,
+      `${name} lost its source-owned call site`,
+    );
+    assert.deepEqual(
+      [...incoming.value].sort(),
+      await nativeIncoming(address),
+      `${name} incoming references differ from exact-target native sites`,
+    );
+    const graph = await call("get_call_graph", {
+      address: expectedCaller,
+      direction: "forward",
+    });
+    assert.ok(graph.value.graph["0"][0].calls.includes(address));
+    const path = await call("trace_call_path", {
+      start: expectedCaller,
+      goal: address,
+      direction: "forward",
+    });
+    assert.equal(path.value.goal_status, "reached");
+    composed = { graph_ms: graph.ms, path_ms: path.ms };
+  }
+  assert.deepEqual(
+    await Promise.all([
+      entries(join(cacheRoot, "projects")),
+      entries(join(cacheRoot, "staging")),
+    ]),
+    before,
+    "A reference-only workflow started a C project export",
+  );
+  const repeated = await call("procedure_callees", { procedure: address });
+  assert.deepEqual(repeated.value, callees.value);
+  return {
+    callers: callers.value.length,
+    callees: callees.value.length,
+    xrefs: incoming.value.length,
+    first_graph_ms: callers.ms,
+    warm_graph_ms: repeated.ms,
+    xrefs_ms: incoming.ms,
+    response_bytes: callers.bytes + callees.bytes + incoming.bytes,
+    relationship_coverage: combineFunctionRelationshipCoverage(
+      callers.structured.relationship_coverage,
+      callees.structured.relationship_coverage,
+    ),
+    ...composed,
+  };
+};

scripts/lib/kuna-string-verifier.mjs

@@ -0,0 +1,166 @@
+import assert from "node:assert/strict";
+import { readdir, realpath } from "node:fs/promises";
+import { join } from "node:path";
+
+import { runKunaCommand } from "../../dist/kuna/KunaCommand.js";
+import { inspectKunaInstallation } from "../../dist/kuna/KunaInstallation.js";
+
+const entries = (path) =>
+  readdir(path).catch((cause) => {
+    if (cause.code === "ENOENT") return [];
+    throw cause;
+  });
+
+/** Independent native oracle; uses source hex fields rather than JS numeric addresses. */
+export const nativeKunaStrings = async ({
+  executable,
+  cacheRoot,
+  workspace,
+  binary,
+  retain,
+}) => {
+  const installed = await inspectKunaInstallation({
+    REA_KUNA_COMMAND: executable,
+    REA_KUNA_CACHE_DIR: cacheRoot,
+  });
+  assert.ok(installed.ok, "Native string oracle could not inspect Kuna");
+  const input = await realpath(binary);
+  const outcome = await runKunaCommand({
+    installation: installed.value,
+    arguments: [
+      "strings",
+      input,
+      "--json",
+      "--encoding",
+      "all",
+      "--min-length",
+      "5",
+      "--termination",
+      "any",
+      "--no-xrefs",
+    ],
+    workspace,
+    operation: "verify:kuna-native-strings",
+    timeoutMs: installed.value.configuration.projectTimeoutMs,
+    reportedTimeoutMs: installed.value.configuration.projectTimeoutMs,
+    outputBytes: 16 * 1024 * 1024,
+    signal: new AbortController().signal,
+  });
+  if (outcome.kind === "retained") retain(outcome);
+  if (outcome.kind !== "ok") throw outcome.error;
+  const document = JSON.parse(outcome.snapshot.stdout.text);
+  assert.equal(document.binary, input);
+  assert.equal(document.count, document.strings.length);
+  assert.equal(document.xrefs, false);
+  return document.strings
+    .map((row) => ({
+      address: row.address_hex,
+      value: row.text,
+      string: {
+        encoding: row.encoding,
+        encoding_status: "observed",
+        termination: row.nul_terminated ? "present_or_not_required" : "missing",
+        byte_length: row.byte_length,
+      },
+    }))
+    .sort((left, right) => {
+      const a = BigInt(left.address),
+        b = BigInt(right.address);
+      return a < b
+        ? -1
+        : a > b
+          ? 1
+          : left.string.encoding.localeCompare(right.string.encoding, "en");
+    });
+};
+
+/** Verify focused/complete string operations before any procedure analysis starts. */
+export const verifyKunaStrings = async ({
+  call,
+  cacheRoot,
+  nativeStrings,
+  expectedStrings = [],
+}) => {
+  const expected = await nativeStrings();
+  if (expectedStrings.length > 0)
+    assert.ok(
+      expected.length > 0,
+      "Source-owned string fixture did not exercise a positive result",
+    );
+  const pattern =
+    expected.find(({ value }) => value.length >= 8 && value.length <= 100)
+      ?.value ??
+    expected[0]?.value ??
+    "REA-empty-string-inventory";
+  const selected = expected.filter(({ value }) =>
+    value.toLowerCase().includes(pattern.toLowerCase()),
+  );
+  const before = await Promise.all([
+    entries(join(cacheRoot, "projects")),
+    entries(join(cacheRoot, "staging")),
+  ]);
+  const cold = await call("search_strings", { pattern });
+  assert.deepEqual(
+    cold.value,
+    selected,
+    "String search differs from native scan",
+  );
+  const source = cold.structured.raw_result.strings;
+  assert.equal(source.inventory_count, expected.length);
+  assert.equal(source.selected_count, selected.length);
+  assert.equal(source.xrefs, false);
+  assert.match(source.sha256, /^[0-9a-f]{64}$/u);
+  assert.ok(source.bytes > 0);
+  assert.equal(cold.structured.provider.id, "kuna");
+  assert.ok(cold.structured.evidence_id);
+  const complete = await call("list_strings");
+  assert.deepEqual(complete.value, expected);
+  for (const value of expectedStrings)
+    assert.ok(
+      complete.value.some((row) => row.value === value),
+      `Required string ${JSON.stringify(value)} was not recovered`,
+    );
+  assert.equal(complete.structured.raw_result.strings.sha256, source.sha256);
+  const repeated = await call("search_strings", { pattern });
+  assert.deepEqual(repeated.value, selected);
+  let exact;
+  if (selected.length > 0) {
+    const address = selected[0].address;
+    exact = await call("list_strings", { address });
+    assert.deepEqual(
+      exact.value,
+      expected.filter((item) => item.address === address),
+    );
+  }
+  const regex = await call("search_strings", {
+    pattern: "^.{5,12}$",
+    mode: "regex",
+    case_sensitive: true,
+  });
+  assert.deepEqual(
+    regex.value,
+    expected.filter(({ value }) => /^.{5,12}$/u.test(value)),
+  );
+  const missing = await call("search_strings", {
+    pattern: "\u0000REA-negative-string-query\u0000",
+  });
+  assert.deepEqual(missing.value, []);
+  assert.deepEqual(
+    await Promise.all([
+      entries(join(cacheRoot, "projects")),
+      entries(join(cacheRoot, "staging")),
+    ]),
+    before,
+    "String reads started a project export",
+  );
+  return {
+    inventory_count: expected.length,
+    selected_count: selected.length,
+    cold_scan_ms: cold.ms,
+    warm_search_ms: repeated.ms,
+    exact_address_ms: exact?.ms ?? null,
+    cold_response_bytes: cold.bytes,
+    complete_response_bytes: complete.bytes,
+    regex_response_bytes: regex.bytes,
+  };
+};

scripts/lib/real-ghidra-target-admission.mjs

@@ -146,6 +146,9 @@ async function verifySourceReadFailures({
     ...(permissionDenied ? ["permission"] : []),
   ];
   for (const scenario of scenarios) {
+    // Same-target reopen may admit restored bytes through retained-client health.
+    // Each rejection needs a cold client, without an existing private snapshot.
+    await call("close_binary");
     await call("open_binary", { path: source, provider_id: "ghidra" });
     const before = await call("binary_session");
     if (scenario === "permission") await chmod(source, 0);

scripts/lib/verify-package-core.mjs

@@ -1,5 +1,6 @@
 import { execFile } from "node:child_process";
 import { lstat } from "node:fs/promises";
+import { dirname, join } from "node:path";
 import { promisify } from "node:util";
 import { Ajv2020 } from "ajv/dist/2020.js";
 
@@ -17,6 +18,25 @@ const loadMcpVerifierResults = () => import("./mcp-verifier-results.mjs");
 /** Promisified child_process execution helper. */
 export const exec = promisify(execFile);
 
+/** Run npm through its JavaScript entry point so Windows command scripts are not required. */
+export const execNpm = (arguments_, options = {}) => {
+  const environment = options.env ?? process.env;
+  const selectedEntry = environment.npm_execpath;
+  if (
+    selectedEntry !== undefined &&
+    (typeof selectedEntry !== "string" || selectedEntry.length === 0)
+  )
+    throw new Error("npm_execpath must name the selected npm CLI entry point");
+  const entry =
+    selectedEntry ??
+    (process.platform === "win32"
+      ? join(dirname(process.execPath), "node_modules/npm/bin/npm-cli.js")
+      : undefined);
+  return entry === undefined
+    ? exec("npm", arguments_, options)
+    : exec(process.execPath, [entry, ...arguments_], options);
+};
+
 /** Run a command and return its stdout. */
 export const run = async (command, args, env) =>
   (await exec(command, args, { env })).stdout;

scripts/lib/wabt-verifier-timeouts.mjs

@@ -0,0 +1,4 @@
+// A single inspection can include native admission plus several WABT commands.
+// The aggregate verifier covers seven complete fixtures and their failure paths.
+export const WABT_OPERATION_TIMEOUT_MS = 4 * 60_000;
+export const WABT_WORKFLOW_TIMEOUT_MS = 15 * 60_000;

scripts/record-catalog-digests.mjs

@@ -0,0 +1,19 @@
+import { writeFile } from "node:fs/promises";
+import { dirname, join, resolve } from "node:path";
+import { fileURLToPath, pathToFileURL } from "node:url";
+
+// Record the default catalog digests into the compiled runtime. Run after
+// `tsc` and before bundling, so the digests come from the same compiled
+// contracts and pinned schema converter that the runtime serves.
+const compiledRoot = resolve(
+  dirname(fileURLToPath(import.meta.url)),
+  "../dist",
+);
+const { createCatalogDigests } = await import(
+  pathToFileURL(join(compiledRoot, "catalogIdentity.js")).href
+);
+await writeFile(
+  join(compiledRoot, "recordedCatalogDigests.js"),
+  `/** Recorded from the compiled default catalog by scripts/record-catalog-digests.mjs; do not edit. */\nexport const RECORDED_CATALOG_DIGESTS = Object.freeze(${JSON.stringify(createCatalogDigests())});\n`,
+  "utf8",
+);

scripts/verify-package-install.mjs

@@ -2,7 +2,7 @@ import { rm } from "node:fs/promises";
 import { join } from "node:path";
 import { pathToFileURL } from "node:url";
 
-import { exec, json, run } from "./lib/verify-package-core.mjs";
+import { exec, execNpm, json, run } from "./lib/verify-package-core.mjs";
 
 /** Install the packed CLI globally with and without optional dependencies and verify PTY degradation. */
 export async function verifyPackageInstall({
@@ -11,8 +11,7 @@ export async function verifyPackageInstall({
   workspace,
   environment,
 }) {
-  await exec(
-    "npm",
+  await execNpm(
     [
       "install",
       "--global",
@@ -53,8 +52,7 @@ export async function verifyPackageInstall({
       `packaged PTY backend failed without lifecycle scripts: ${JSON.stringify(processCaptureCapability)}`,
     );
   const noOptionalPrefix = join(workspace, "prefix-no-optional");
-  await exec(
-    "npm",
+  await execNpm(
     [
       "install",
       "--global",
@@ -108,7 +106,7 @@ export async function verifyPackageInstall({
 const verifyInstalledPackageCanRepack = async (prefix, environment) => {
   const installedPackageRoot = join(prefix, "lib/node_modules/rea-agents");
   const repackedTarball = (
-    await exec("npm", ["pack", "--silent"], {
+    await execNpm(["pack", "--silent"], {
       cwd: installedPackageRoot,
       env: environment,
     })

scripts/verify-package-pack.mjs

@@ -2,7 +2,7 @@ import { mkdir } from "node:fs/promises";
 import { join } from "node:path";
 import { CATALOG_IDENTITY } from "../dist/catalogIdentity.js";
 
-import { exec } from "./lib/verify-package-core.mjs";
+import { exec, execNpm } from "./lib/verify-package-core.mjs";
 import { verifyPackedBridge } from "./verify-packed-bridge.mjs";
 
 /** Create a tarball and assert production packaging constraints. */
@@ -12,13 +12,9 @@ export async function verifyPackagePack({ root, workspace }) {
   const tarball = join(
     packDirectory,
     (
-      await exec(
-        "npm",
-        ["pack", "--silent", "--pack-destination", packDirectory],
-        {
-          cwd: root,
-        },
-      )
+      await execNpm(["pack", "--silent", "--pack-destination", packDirectory], {
+        cwd: root,
+      })
     ).stdout.trim(),
   );
   const packedFiles = (await exec("tar", ["-tf", tarball])).stdout.split("\n");

scripts/verify-packaged-ghidra-windows.mjs

@@ -1,4 +1,8 @@
 #!/usr/bin/env node
+import {
+  WINDOWS_GHIDRA_FIXTURE_FLAGS,
+  windowsGhidraFixtureOptions,
+} from "./lib/ghidra-windows-fixture-options.mjs";
 
 import assert from "node:assert/strict";
 import {
@@ -24,6 +28,7 @@ import { fileURLToPath, pathToFileURL } from "node:url";
 
 import { Client } from "@modelcontextprotocol/client";
 import { StdioClientTransport } from "@modelcontextprotocol/client/stdio";
+import { execNpm } from "./lib/verify-package-core.mjs";
 
 if (process.platform !== "win32" || process.arch !== "x64")
   throw new Error(
@@ -33,11 +38,11 @@ const exec = promisify(execFile);
 const arguments_ = process.argv.slice(2);
 const internalWorkspace = arguments_[0] === "--internal-workspace";
 const fixtureArguments = internalWorkspace ? arguments_.slice(2) : arguments_;
-const x86Fixture = fixtureArguments.includes("--x86");
-const dllFixture = fixtureArguments.includes("--dll");
+const fixture = windowsGhidraFixtureOptions(fixtureArguments);
+const dllFixture = fixture.dll;
 const [packageRootArgument, targetArgument, reportArgument] =
   fixtureArguments.filter(
-    (argument) => argument !== "--x86" && argument !== "--dll",
+    (argument) => !WINDOWS_GHIDRA_FIXTURE_FLAGS.includes(argument),
   );
 // Windows locks the loaded package-owned addon until the verifier exits.
 // Keep installation cleanup in a parent that never loads that addon.
@@ -78,15 +83,10 @@ let packageRoot = resolve(packageRootArgument ?? ".");
 // package roots support an already-installed artifact without a second install.
 if (packageRootArgument === undefined) {
   try {
-    const npmEntry =
-      process.env.npm_execpath ??
-      join(dirname(process.execPath), "node_modules/npm/bin/npm-cli.js");
     const packed = JSON.parse(
       (
-        await exec(
-          process.execPath,
+        await execNpm(
           [
-            npmEntry,
             "pack",
             "--json",
             "--ignore-scripts",
@@ -103,10 +103,8 @@ if (packageRootArgument === undefined) {
       "The package lane must produce one artifact.",
     );
     const prefix = join(workspace, "installed");
-    await exec(
-      process.execPath,
+    await execNpm(
       [
-        npmEntry,
         "install",
         "--prefix",
         prefix,
@@ -125,10 +123,7 @@ if (packageRootArgument === undefined) {
     });
   }
 }
-const target = resolve(
-  targetArgument ??
-    `build/fixtures/rea-ghidra-windows${x86Fixture ? "-x86" : ""}.${dllFixture ? "dll" : "exe"}`,
-);
+const target = resolve(targetArgument ?? `build/fixtures/${fixture.filename}`);
 let TOOL_CONTRACTS, native, token, sha256;
 let parsedTarget;
 try {
@@ -160,10 +155,7 @@ try {
   assert.equal(parsedTarget.value.format, "pe");
   assert.equal(parsedTarget.value.managed, false);
   if (targetArgument === undefined) {
-    assert.equal(
-      parsedTarget.value.architecture,
-      x86Fixture ? "x86" : "x86_64",
-    );
+    assert.equal(parsedTarget.value.architecture, fixture.architecture);
     assert.equal(
       parsedTarget.value.executableRole,
       dllFixture ? "shared-library" : "application",
@@ -321,13 +313,13 @@ try {
     const procedures = await call("list_procedures", {});
     assert.ok(procedures.length > 0);
     if (targetArgument === undefined) {
-      const calleeAddress = x86Fixture ? "0x401010" : "0x140001010";
+      const calleeAddress = fixture.calleeAddress;
       const calleeCode = await call("procedure_pseudo_code", {
         procedure: calleeAddress,
       });
       assert.match(calleeCode, /\b(?:42|0x2a)\b/iu);
       if (dllFixture) {
-        const callerAddress = x86Fixture ? "0x401000" : "0x140001000";
+        const callerAddress = fixture.callerAddress;
         assert.ok(
           (
             await call("procedure_callees", { procedure: callerAddress })
@@ -379,7 +371,7 @@ try {
     report.byteSearch = await verifyWindowsGhidraByteSearch({
       invoke: call,
       sourceBytes,
-      architecture: parsedTarget.value.architecture,
+      imageBase: fixture.imageBase,
       sourceOwnedFixture: targetArgument === undefined,
       fallbackAddress: procedure.address,
       fallbackFileOffset: mapping.file_offset,

scripts/verify-packaged-wasm-artifact.mjs

@@ -2,7 +2,8 @@
 import { join } from "node:path";
 import { mkdir } from "node:fs/promises";
 import { PrivateRuntimeRoot } from "../dist/process/PrivateRuntimeRoot.js";
-import { exec } from "./lib/verify-package-core.mjs";
+import { exec, execNpm } from "./lib/verify-package-core.mjs";
+import { WABT_WORKFLOW_TIMEOUT_MS } from "./lib/wabt-verifier-timeouts.mjs";
 import { verifyPackagePack } from "./verify-package-pack.mjs";
 
 const root = await PrivateRuntimeRoot.create({
@@ -23,8 +24,7 @@ try {
     XDG_CONFIG_HOME: join(home, ".config"),
     XDG_CACHE_HOME: join(home, ".cache"),
   };
-  await exec(
-    "npm",
+  await execNpm(
     [
       "install",
       "--global",
@@ -49,7 +49,11 @@ try {
   const verified = await exec(
     process.execPath,
     ["scripts/verify-wasm-artifact.mjs", entrypoint, "--require-tools"],
-    { env: environment, timeout: 180_000, maxBuffer: 4 * 1024 * 1024 },
+    {
+      env: environment,
+      timeout: WABT_WORKFLOW_TIMEOUT_MS,
+      maxBuffer: 4 * 1024 * 1024,
+    },
   );
   process.stdout.write(verified.stdout);
 } finally {

scripts/verify-real-ghidra-mips.mjs

@@ -12,6 +12,7 @@ import { StdioClientTransport } from "@modelcontextprotocol/client/stdio";
 import { parseBinaryTarget } from "../dist/application/BinaryTargetResolver.js";
 import {
   inspectMipsReadelf,
+  expectedMipsElfProfile,
   inspectLegacyMipsReadelf,
   assertMipsLoadedImage,
   assertMipsProbe,
@@ -120,6 +121,17 @@ async function verifySoftFloat(call, symbols, byteOrder) {
     );
   return { storage: boundaries };
 }
+function assertIncompleteMipsInspection(error) {
+  assert.equal(error.code, "capability_unavailable");
+  assert.equal(error.details.selection_reason, "target_unsupported");
+  const rejection = error.details.rejections.find(
+    (candidate) => candidate.provider_id === "ghidra",
+  );
+  assert.equal(rejection?.code, "architecture_unsupported");
+  assert.match(rejection.reason, /ABI declaration inspection is incomplete/u);
+  assert.match(rejection.reason, /section header table/u);
+}
+
 const reports = [];
 let primaryFailure;
 try {
@@ -475,28 +487,9 @@ try {
         JSON.parse(await readFile(snapshotPath, "utf8")),
       );
       assert.equal(snapshot.target.architecture, "mips");
-      const abi = independent.mips.abiFlags;
       assert.deepEqual(
         snapshot.binding.analysis_profile.parameters.mips_elf,
-        {
-          elf_class: independent.mips.elfClass,
-          byte_order: independent.mips.byteOrder,
-          type: independent.mips.type,
-          flags: independent.mips.flags,
-          abi_flags: {
-            version: abi.version,
-            isa_level: abi.isaLevel,
-            isa_revision: abi.isaRevision,
-            gpr_size: abi.gprSize,
-            cpr1_size: abi.cpr1Size,
-            cpr2_size: abi.cpr2Size,
-            fp_abi: abi.fpAbi,
-            isa_extension: abi.isaExtension,
-            ases: abi.ases,
-            flags1: abi.flags1,
-            flags2: abi.flags2,
-          },
-        },
+        expectedMipsElfProfile(independent.mips),
         "Snapshot profile did not retain the independently inspected ELF/ABI declaration",
       );
       assert.equal(
@@ -617,7 +610,8 @@ try {
       // PSP keeps its independent Allegrex/A-B-A checks; carved PSP is not verified.
       let carved;
       if (!psp) {
-        // Carved firmware keeps all program headers/load bytes but loses sections.
+        // A program-header ABI record survives carving, but GNU declarations in
+        // uncaptured section headers remain unknown: both adapters must refuse.
         const read16 = (offset) =>
           byteOrder === "little"
             ? sourceBytes.readUInt16LE(offset)
@@ -655,79 +649,50 @@ try {
           carvedResolved.value.mips.limitations.join(" "),
           /section header table/u,
         );
-        const carvedTarget = await call("open_binary", {
-          path: carvedPath,
-          provider_id: "ghidra",
-        });
-        assert.equal(carvedTarget.sha256, carvedSha256);
-        const carvedImage = await call("inspect_native_load_image");
-        assertMipsLoadedImage(
-          carvedImage.observations,
-          byteOrder,
-          carvedSha256,
-        );
-        const carvedProcedures = await call("list_procedures");
-        assert.ok(
-          carvedProcedures.some(
-            (p) =>
-              BigInt(p.address) === BigInt(independent.symbols.rea_mips_entry),
+        const carvedError = requireMcpToolError(
+          await client.callTool(
+            {
+              name: "open_binary",
+              arguments: { path: carvedPath, provider_id: "ghidra" },
+            },
+            { timeout: 60000 },
           ),
         );
-        const carvedDossier = functionDossierSchema.parse(
-          await call("analyze_function", {
-            procedure: independent.symbols.rea_mips_entry,
-          }),
-        );
-        assert.ok(carvedDossier.pseudocode.trim().length > 0);
-        const carvedSnapshotPath = join(
-          workspace,
-          `${byteOrder}-${floatAbi}-carved.snapshot.json`,
-        );
-        await call("close_binary", { snapshot_path: carvedSnapshotPath });
-        const carvedSnapshot = parseAnalysisSnapshot(
-          JSON.parse(await readFile(carvedSnapshotPath, "utf8")),
-        );
-        assert.equal(carvedSnapshot.target.sha256, carvedSha256);
+        assertIncompleteMipsInspection(carvedError);
+        let carvedCliError;
+        try {
+          await execute(
+            process.execPath,
+            [
+              entrypoint,
+              "function",
+              carvedPath,
+              independent.symbols.rea_mips_entry,
+              "--provider",
+              "ghidra",
+              "--json",
+            ],
+            { env, timeout: 60000, maxBuffer: 1024 * 1024 },
+          );
+        } catch (cause) {
+          carvedCliError = cause;
+        }
         assert.ok(
-          carvedSnapshot.evidence_bundle.records.some((record) =>
-            parseEvidence(record).limitations.some((item) =>
-              item.includes("section header table"),
-            ),
-          ),
-        );
-        const carvedCli = await execute(
-          process.execPath,
-          [
-            entrypoint,
-            "function",
-            carvedPath,
-            independent.symbols.rea_mips_entry,
-            "--provider",
-            "ghidra",
-            "--json",
-          ],
-          { env, timeout: 240000, maxBuffer: 16 * 1024 * 1024 },
-        );
-        const carvedEvidence = parseEvidence(JSON.parse(carvedCli.stdout));
-        assert.equal(carvedEvidence.subject?.digest.sha256, carvedSha256);
-        assert.ok(
-          carvedEvidence.limitations.some((item) =>
-            item.includes("section header table"),
-          ),
-        );
-        assert.equal(
-          functionDossierSchema.parse(carvedEvidence.normalized_result)
-            .procedure.address,
-          carvedDossier.procedure.address,
+          carvedCliError &&
+            Number.isInteger(carvedCliError.code) &&
+            carvedCliError.code !== 0,
+          "Expected an incomplete-ABI refusal, not a timeout or success",
         );
+        assertIncompleteMipsInspection(JSON.parse(carvedCliError.stdout));
         assert.deepEqual(await readFile(carvedPath), carvedBytes);
         carved = {
           sha256: carvedSha256,
           source_bytes: carvedBytes.length,
           section_header_offset: sectionOffset,
-          effective_language: carvedImage.observations.language_id,
+          status: "expected-incomplete-abi-refusal",
           limitations: carvedResolved.value.mips.limitations,
-          procedures: carvedProcedures.length,
+          cli_exit: carvedCliError.code,
+          mcp_error: carvedError,
         };
       }
       reports.push({

scripts/verify-real-ghidra-windows.mjs

@@ -1,9 +1,11 @@
 #!/usr/bin/env node
+import { windowsGhidraFixtureOptions } from "./lib/ghidra-windows-fixture-options.mjs";
 
 import { access, readFile } from "node:fs/promises";
 import { isAbsolute, resolve } from "node:path";
 import { fileURLToPath } from "node:url";
 
+import { parseConfig } from "../dist/config/parseConfig.js";
 import { resolveGhidraAnalysisProfile } from "../dist/ghidra/GhidraAnalysisProfile.js";
 import { GhidraClient } from "../dist/ghidra/GhidraClient.js";
 import {
@@ -20,7 +22,10 @@ import { inspectGhidraInstallation } from "../dist/ghidra/GhidraInstallation.js"
 import { SUPPORTED_GHIDRA_VERSION } from "../dist/ghidra/GhidraInstallationPolicy.js";
 import { GhidraHeadlessLauncher } from "../dist/ghidra/GhidraLauncher.js";
 import { GHIDRA_PROVIDER_IDENTITY } from "../dist/ghidra/GhidraProviderCapabilities.js";
-import { windowsP0Capabilities } from "../dist/ghidra/GhidraProviderCapabilities.js";
+import {
+  WINDOWS_P0_NATIVE_PE_ARCHITECTURES,
+  windowsP0Capabilities,
+} from "../dist/ghidra/GhidraProviderCapabilities.js";
 import {
   GHIDRA_MUTATING_OPERATIONS,
   GHIDRA_SESSION_CAPABILITIES,
@@ -71,15 +76,11 @@ if (
   );
 
 const root = resolve(fileURLToPath(new URL("..", import.meta.url)));
-const architecture = process.argv.includes("--x86") ? "x86" : "x86_64";
-const dllFixture = process.argv.includes("--dll");
+const fixture = windowsGhidraFixtureOptions(process.argv.slice(2));
+const architecture = fixture.architecture;
+const dllFixture = fixture.dll;
 const role = dllFixture ? "shared-library" : "application";
-const targetPath = resolve(
-  root,
-  "build",
-  "fixtures",
-  `rea-ghidra-windows${architecture === "x86" ? "-x86" : ""}.${dllFixture ? "dll" : "exe"}`,
-);
+const targetPath = resolve(root, "build", "fixtures", fixture.filename);
 const target = await parseBinaryTarget(targetPath);
 if (
   !target.ok ||
@@ -91,10 +92,15 @@ if (
   throw new Error(
     `Controlled Windows fixture failed admission: ${JSON.stringify(target)}`,
   );
+const configuration = parseConfig(process.env);
+if (!configuration.ok) throw configuration.error;
 const profile = await resolveGhidraAnalysisProfile(
   target.value,
   GHIDRA_PROVIDER_IDENTITY,
   installation,
+  undefined,
+  undefined,
+  configuration.value.ghidraDisabledAnalyzers,
 );
 if (!profile.ok || profile.value.profile === null)
   throw new Error("Windows Ghidra profile could not be committed");
@@ -113,6 +119,9 @@ const client = new GhidraClient({
       new URL("../bridge/ghidra/ReaGhidraBridge.java", import.meta.url),
     ),
     platform: "win32",
+    ...(configuration.value.ghidraDisabledAnalyzers === undefined
+      ? {}
+      : { disabledAnalyzers: configuration.value.ghidraDisabledAnalyzers }),
   }),
   targetPath: target.value.path,
   targetSha256: target.value.sha256,
@@ -134,8 +143,8 @@ try {
     target.value.sha256,
     profile.value.profile.digest,
   );
-  const languagePrefix = architecture === "x86" ? "x86:LE:32:" : "x86:LE:64:";
-  if (!started.value.target.language_id.startsWith(languagePrefix))
+  const languageId = fixture.languageId;
+  if (started.value.target.language_id !== languageId)
     throw new Error("Windows fixture imported with the wrong Ghidra language");
   coordinates = client.diagnostics();
   assertRuntimeCoordinates(coordinates, target.value.sha256);
@@ -161,7 +170,7 @@ try {
   );
   if (procedure === undefined)
     throw new Error("Windows Ghidra fixture exposed no local procedure");
-  const calleeAddress = architecture === "x86" ? 0x401010n : 0x140001010n;
+  const calleeAddress = BigInt(fixture.calleeAddress);
   const callee = procedures.find(
     (item) => BigInt(item.address) === calleeAddress,
   );
@@ -175,7 +184,7 @@ try {
       "Windows fixture decompilation lost its known return value",
     );
   if (dllFixture) {
-    const callerAddress = architecture === "x86" ? "0x401000" : "0x140001000";
+    const callerAddress = fixture.callerAddress;
     const callees = await functionOperation("procedure_callees", {
       procedure: callerAddress,
     });
@@ -223,7 +232,7 @@ try {
   const byteSearch = await verifyWindowsGhidraByteSearch({
     invoke: inventory,
     sourceBytes,
-    architecture,
+    imageBase: fixture.imageBase,
   });
 
   for (const operation of [
@@ -268,12 +277,16 @@ try {
 
   // The reference controls occupy the EXE fixture's additional function.
   // DLL fixtures retain their independent exported-caller/return controls.
-  const compactReferences = dllFixture
-    ? null
-    : await verifyGhidraCompactReferences(
-        functionOperation,
-        architecture === "x86",
-      );
+  // ARM/ARM64 fixtures verify function entry, decompiler readback and the
+  // exported caller/callee relationship; the x86/x64 compact-reference
+  // value-flow battery has no ARM/ARM64 instruction encoding in this fixture.
+  const compactReferences =
+    dllFixture || architecture === "arm" || architecture === "arm64"
+      ? null
+      : await verifyGhidraCompactReferences(
+          functionOperation,
+          architecture === "x86",
+        );
   const borlandSeh =
     architecture === "x86" && !dllFixture
       ? await verifyGhidraBorlandSeh(functionObservationOperation, true)
@@ -300,10 +313,11 @@ try {
       protected_dacl: true,
       handle_admission: true,
     },
+    supported_target_architectures: [...WINDOWS_P0_NATIVE_PE_ARCHITECTURES],
     limitations: [
       "approved-non-sensitive-fixtures-only",
       "windows-x64-local-ntfs-only",
-      "native-x86-and-x86-64-pe-applications-and-dlls-only",
+      "native-pe-applications-and-dlls-only",
       "no-gui-or-mutation-authority",
     ],
   };
@@ -323,11 +337,24 @@ try {
 }
 if (report === undefined)
   throw new Error("Windows Ghidra report was not produced");
-report.file_offsets = await verifyGhidraFileOffsets(
-  targetPath,
-  resolve(root, "scripts", "rea.mjs"),
-  architecture === "x86" ? "0x401010" : "0x140001010",
-);
+try {
+  report.file_offsets = await verifyGhidraFileOffsets(
+    targetPath,
+    resolve(root, "scripts", "rea.mjs"),
+    fixture.calleeAddress,
+  );
+} catch (cause) {
+  // Preserve completed real-provider facts if a separate adapter proof fails.
+  process.stdout.write(
+    `${JSON.stringify({
+      ...report,
+      ok: false,
+      primary_verification: "complete",
+      file_offsets: { status: "incomplete", failure_code: cause.code ?? null },
+    })}\n`,
+  );
+  throw cause;
+}
 process.stdout.write(
   `${JSON.stringify({ verifier_run: await completeVerifierRun(verifierRun), ...report })}\n`,
 );

scripts/verify-real-kuna.mjs

@@ -0,0 +1,602 @@
+#!/usr/bin/env node
+// Real Kuna provider lane. Requires a caller-supplied kuna (REA_KUNA_COMMAND)
+// and a host C compiler; REA installs neither. The default run builds a
+// source-owned fixture, with symbols and stripped, and verifies the public MCP
+// workflow: cold single-function pseudocode, the project export, warm reuse
+// from a fresh server, and cleanup. `--targets DIR --functions a,b` adds
+// caller-built binaries (DIR/<flavor>/<name> plus <name>.stripped).
+// `--compare-ghidra` runs the same functions through a bring-your-own Ghidra
+// and reports latency, CPU, memory, output size and simple quality signals.
+import assert from "node:assert/strict";
+import { execFile } from "node:child_process";
+import { createHash } from "node:crypto";
+import {
+  mkdir,
+  mkdtemp,
+  readFile,
+  readdir,
+  rm,
+  stat,
+  writeFile,
+} from "node:fs/promises";
+import { tmpdir } from "node:os";
+import { join, resolve } from "node:path";
+import { fileURLToPath } from "node:url";
+import { parseArgs, promisify } from "node:util";
+import { Client } from "@modelcontextprotocol/client";
+import { StdioClientTransport } from "@modelcontextprotocol/client/stdio";
+import { execFileOutput } from "../dist/process/ExecFileOutput.js";
+import { requireMcpOperationResult } from "./lib/mcp-verifier-results.mjs";
+import { verifyKunaReferences } from "./lib/kuna-reference-verifier.mjs";
+import {
+  nativeKunaStrings,
+  verifyKunaStrings,
+} from "./lib/kuna-string-verifier.mjs";
+import { nativeKunaIncomingSites } from "./lib/kuna-native-reference-verifier.mjs";
+import {
+  assertVerifierCleanupComplete,
+  completeVerifierRun,
+  createVerifierRun,
+} from "./lib/verifier-run.mjs";
+
+const exec = promisify(execFile);
+const { values } = parseArgs({
+  options: {
+    targets: { type: "string" },
+    functions: { type: "string" },
+    "compare-ghidra": { type: "boolean", default: false },
+    report: { type: "string" },
+    entrypoint: { type: "string" },
+  },
+});
+const entrypoint =
+  values.entrypoint === undefined
+    ? fileURLToPath(new URL("./rea.mjs", import.meta.url))
+    : resolve(values.entrypoint);
+const kuna = process.env.REA_KUNA_COMMAND;
+assert.ok(
+  kuna !== undefined && kuna.startsWith("/"),
+  "Kuna lane prerequisite missing: REA_KUNA_COMMAND must name a caller-supplied kuna by absolute path (bring your own)",
+);
+if (values["compare-ghidra"]) {
+  // The comparison runs on caller-built targets only; the fixture has none.
+  assert.ok(
+    values.targets !== undefined && values.functions !== undefined,
+    "--compare-ghidra compares caller-built targets: pass --targets DIR --functions a,b as well",
+  );
+  assert.ok(
+    process.env.GHIDRA_INSTALL_DIR,
+    "Ghidra comparison prerequisite missing: GHIDRA_INSTALL_DIR (bring your own Ghidra 12.1.4 and JDK 21)",
+  );
+}
+const run = createVerifierRun();
+const workspace = await mkdtemp(join(tmpdir(), "rea-kuna-lane-"));
+const cacheRoot = join(workspace, "cache");
+// A server retains its workspace until both provider and transport cleanup
+// have positively completed, even if later lineage observation is empty.
+const pendingServers = new Set();
+// Unproven native-oracle stops retain their supervisors and this workspace.
+const retainedNative = new Set();
+let kunaVersion;
+
+const FIXTURE_SOURCE = String.raw`
+#include <stdio.h>
+#include <stdlib.h>
+static const char rea_kuna_utf8[] __attribute__((used)) = "＿φ( °-°)/ REA unicode marker";
+/* The leading NUL unit ends any UTF-16 run that bytes before this array would
+   start: the UTF-8 marker's last byte and NUL decode as the unit 'r', so on
+   layouts where it precedes this array Kuna reports "rREA wide marker". */
+static const unsigned short rea_kuna_wide[] __attribute__((used)) = {
+  0,'R','E','A',' ','w','i','d','e',' ','m','a','r','k','e','r',0
+};
+#include <string.h>
+__attribute__((noinline)) unsigned rea_checksum(const unsigned char *p, size_t n) {
+  unsigned h = 2166136261u;
+  for (size_t i = 0; i < n; i++) h = (h ^ p[i]) * 16777619u;
+  return h;
+}
+__attribute__((noinline)) int rea_classify(int c) {
+  switch (c) {
+  case 'a': return 1; case 'e': return 2; case 'i': return 3;
+  case 'o': return 4; case 'u': return 5; default: return c > 'z' ? -1 : 0;
+  }
+}
+int main(int argc, char **argv) {
+  if (argc < 2) return 2;
+  printf("%u %d\n", rea_checksum((const unsigned char *)argv[1], strlen(argv[1])),
+         rea_classify(argv[1][0]));
+  return 0;
+}
+`;
+
+/** Resolve function entry addresses from a symbol-bearing build. */
+const symbolAddresses = async (binary, names) => {
+  const { stdout } = await exec(process.env.REA_NM ?? "nm", [binary]);
+  const found = new Map();
+  for (const line of stdout.split("\n")) {
+    const [address, type, symbol] = line.trim().split(/\s+/u);
+    if (symbol === undefined || !/^[tT]$/u.test(type ?? "")) continue;
+    const plain = symbol.startsWith("_") ? symbol.slice(1) : symbol;
+    for (const name of names)
+      if ((symbol === name || plain === name) && !found.has(name))
+        found.set(name, `0x${BigInt(`0x${address}`).toString(16)}`);
+  }
+  return found;
+};
+
+/** Sum the resident memory and CPU time of a process and its descendants. */
+const sampleTree = async (root) => {
+  const { stdout } = await exec("ps", ["-A", "-o", "pid=,ppid=,rss=,time="]);
+  const rows = stdout
+    .trim()
+    .split("\n")
+    .map((line) => line.trim().split(/\s+/u))
+    .map(([pid, ppid, rss, time]) => ({
+      pid: Number(pid),
+      ppid: Number(ppid),
+      rssKiB: Number(rss),
+      cpuSeconds: (time ?? "0:0")
+        .split(/[:-]/u)
+        .map(Number)
+        .reduce((total, part) => total * 60 + part, 0),
+    }));
+  const members = new Set([root]);
+  for (let grew = true; grew;) {
+    grew = false;
+    for (const row of rows)
+      if (!members.has(row.pid) && members.has(row.ppid)) {
+        members.add(row.pid);
+        grew = true;
+      }
+  }
+  const tree = rows.filter(({ pid }) => members.has(pid));
+  return {
+    rssKiB: tree.reduce((total, row) => total + row.rssKiB, 0),
+    cpu: new Map(tree.map((row) => [row.pid, row.cpuSeconds])),
+  };
+};
+
+/** One MCP server with a selected provider, sampled while it runs. */
+const openServer = async (provider) => {
+  const owner = Symbol(provider.id);
+  pendingServers.add(owner);
+  const transport = new StdioClientTransport({
+    command: process.execPath,
+    args: [entrypoint, "--mcp"],
+    env: {
+      PATH: process.env.PATH ?? "/usr/bin:/bin",
+      HOME: process.env.HOME ?? workspace,
+      REA_LOG_LEVEL: "silent",
+      REA_PROCESS_RUN_ID: run.run_id,
+      REA_KUNA_COMMAND: kuna,
+      REA_KUNA_CACHE_DIR: cacheRoot,
+      ...(process.env.GHIDRA_INSTALL_DIR === undefined
+        ? {}
+        : { GHIDRA_INSTALL_DIR: process.env.GHIDRA_INSTALL_DIR }),
+      ...(process.env.JAVA_HOME === undefined
+        ? {}
+        : { JAVA_HOME: process.env.JAVA_HOME }),
+    },
+    stderr: "ignore",
+  });
+  const client = new Client({ name: "rea-real-kuna", version: "1" });
+  let peakKiB = 0;
+  const cpu = new Map();
+  const sampleOnce = async () => {
+    const pid = transport.pid;
+    if (pid === null) return;
+    const observed = await sampleTree(pid).catch(() => undefined);
+    if (observed === undefined) return;
+    peakKiB = Math.max(peakKiB, observed.rssKiB);
+    for (const [member, seconds] of observed.cpu)
+      cpu.set(member, Math.max(cpu.get(member) ?? 0, seconds));
+  };
+  let sampling;
+  const sample = () => {
+    sampling ??= sampleOnce().finally(() => {
+      sampling = undefined;
+    });
+    return sampling;
+  };
+  let timer;
+  const call = async (name, arguments_ = {}) => {
+    const started = performance.now();
+    const result = await client.callTool(
+      { name, arguments: arguments_ },
+      { timeout: 3_600_000 },
+    );
+    const ms = Math.round(performance.now() - started);
+    const bytes = Buffer.byteLength(JSON.stringify(result));
+    return {
+      ms,
+      bytes,
+      value: requireMcpOperationResult(result, name),
+      structured: result.structuredContent,
+    };
+  };
+  const close = async (priorFailure) => {
+    clearInterval(timer);
+    await sample();
+    const failures = priorFailure === undefined ? [] : [priorFailure];
+    // Attempt each cleanup independently. Disposing a transport is not proof
+    // that close_binary released retained provider processes or files.
+    for (const cleanup of [
+      () => call("close_binary"),
+      () => client.close(),
+      () => transport.close(),
+    ])
+      try {
+        await cleanup();
+      } catch (cause) {
+        failures.push(cause);
+      }
+    // A prior verification error must survive successful cleanup. Only the
+    // cleanup failures retain this server's files.
+    if (failures.length > (priorFailure === undefined ? 0 : 1))
+      throw new AggregateError(
+        failures,
+        "MCP server cleanup was not confirmed",
+      );
+    pendingServers.delete(owner);
+    if (priorFailure !== undefined) throw priorFailure;
+    return {
+      peak_rss_mib: Math.round(peakKiB / 1024),
+      cpu_seconds: [...cpu.values()].reduce((total, value) => total + value, 0),
+    };
+  };
+  try {
+    await client.connect(transport);
+    timer = setInterval(() => void sample(), 200);
+    await call("open_binary", {
+      path: provider.path,
+      provider_id: provider.id,
+    });
+  } catch (cause) {
+    // A rejected connection/target still owns its transport and workspace.
+    await close(cause);
+  }
+  return { call, close };
+};
+
+/** Count structuring and diagnostic markers in provider pseudocode. */
+const quality = (text) => ({
+  bytes: text === null ? 0 : Buffer.byteLength(text),
+  gotos: text === null ? 0 : (text.match(/\bgoto\b/gu) ?? []).length,
+  warnings:
+    text === null ? 0 : (text.match(/WARNING|\/\/ warn:/gu) ?? []).length,
+});
+
+/** Verify Kuna on one binary and measure its cold and warm answers. */
+const verifyKuna = async (
+  path,
+  functions,
+  expectedCaller,
+  expectedStrings = [],
+) => {
+  const sha256 = createHash("sha256")
+    .update(await readFile(path))
+    .digest("hex");
+  const cold = await openServer({ path, id: "kuna" });
+  const answers = [];
+  let coldFailure;
+  try {
+    answers.push({
+      strings: await verifyKunaStrings({
+        call: cold.call,
+        cacheRoot,
+        expectedStrings,
+        nativeStrings: () =>
+          nativeKunaStrings({
+            executable: kuna,
+            cacheRoot,
+            workspace,
+            binary: path,
+            retain: (owner) => retainedNative.add(owner),
+          }),
+      }),
+    });
+    const listed = await cold.call("list_procedures");
+    for (const [name, address] of functions) {
+      assert.ok(
+        listed.value.some((entry) => entry.address === address),
+        `${name} at ${address} is missing from Kuna's procedure list for ${path}`,
+      );
+      const references = await verifyKunaReferences({
+        call: cold.call,
+        cacheRoot,
+        name,
+        address,
+        expectedCaller,
+        nativeIncoming: (targetAddress) =>
+          nativeKunaIncomingSites({
+            executable: kuna,
+            cacheRoot,
+            workspace,
+            binary: path,
+            address: targetAddress,
+            retain: (outcome) => retainedNative.add(outcome),
+          }),
+      });
+      const pseudocode = await cold.call("procedure_pseudo_code", {
+        procedure: address,
+      });
+      assert.equal(pseudocode.structured.subject.digest.sha256, sha256);
+      assert.equal(pseudocode.structured.provider.id, "kuna");
+      const source = pseudocode.structured.raw_result?.source?.kind;
+      // A fast export can finish before the first request reaches the
+      // decompile path; both sources are valid answers. The single-function
+      // fallback itself is covered by the provider's boundary tests.
+      assert.ok(
+        source === "single-function" || source === "project-export",
+        `Unexpected pseudocode source ${String(source)}`,
+      );
+      const assembly = await cold.call("procedure_assembly", {
+        procedure: address,
+      });
+      assert.equal(
+        assembly.structured.raw_result.source.kind,
+        "project-export",
+      );
+      assert.match(assembly.value, new RegExp(`:  ; ${address}\\n`, "u"));
+      const exported = await cold.call("procedure_pseudo_code", {
+        procedure: address,
+      });
+      const recorded = exported.structured.raw_result.source;
+      assert.equal(recorded.kind, "project-export");
+      const block = (await readFile(join(recorded.directory, recorded.file)))
+        .subarray(
+          recorded.byte_offset,
+          recorded.byte_offset + recorded.byte_length,
+        )
+        .toString("utf8");
+      assert.ok(
+        exported.value === null || block.includes(exported.value),
+        "Served pseudocode differs from the recorded export span",
+      );
+      const dossier = await cold.call("analyze_function", {
+        procedure: address,
+      });
+      assert.deepEqual(
+        dossier.structured.relationship_coverage,
+        references.relationship_coverage,
+        "Function dossier lost the directional call coverage",
+      );
+      const combined = dossier.structured.raw_result.source;
+      assert.equal(combined.kind, "project-export");
+      assert.deepEqual(
+        combined.files.map(({ facet }) => facet),
+        ["pseudocode", "assembly"],
+      );
+      for (const file of combined.files) {
+        const bytes = await readFile(join(combined.directory, file.file));
+        assert.equal(
+          createHash("sha256").update(bytes).digest("hex"),
+          file.file_sha256,
+        );
+        const span = bytes
+          .subarray(file.byte_offset, file.byte_offset + file.byte_length)
+          .toString("utf8");
+        const facet = dossier.value[file.facet];
+        assert.ok(
+          span.includes(Array.isArray(facet) ? facet.join("\n") : facet),
+        );
+      }
+      answers.push({
+        name,
+        address,
+        cold_source: source,
+        cold_ms: pseudocode.ms,
+        export_wait_ms: assembly.ms,
+        warm_same_session_ms: exported.ms,
+        response_bytes: exported.bytes,
+        dossier_response_bytes: dossier.bytes,
+        ...quality(exported.value),
+        references,
+      });
+    }
+  } catch (cause) {
+    coldFailure = cause;
+  } finally {
+    answers.push({ cold_server: await cold.close(coldFailure) });
+  }
+  const staging = await readdir(join(cacheRoot, "staging"));
+  assert.deepEqual(staging, [], "Kuna staging survived a completed export");
+  // A fresh server reuses the export immediately.
+  const warm = await openServer({ path, id: "kuna" });
+  let warmFailure;
+  try {
+    for (const answer of answers)
+      if (answer.address !== undefined) {
+        const reread = await warm.call("procedure_pseudo_code", {
+          procedure: answer.address,
+        });
+        assert.equal(
+          reread.structured.raw_result.source.kind,
+          "project-export",
+        );
+        answer.warm_fresh_server_ms = reread.ms;
+      }
+  } catch (cause) {
+    warmFailure = cause;
+  } finally {
+    answers.push({ warm_server: await warm.close(warmFailure) });
+  }
+  return answers;
+};
+
+/** Measure Ghidra on the same functions through the same public workflow. */
+const measureGhidra = async (path, functions) => {
+  const server = await openServer({ path, id: "ghidra" });
+  const answers = [];
+  let failure;
+  try {
+    for (const [name, address] of functions) {
+      const cold = await server.call("procedure_pseudo_code", {
+        procedure: address,
+      });
+      const warm = await server.call("procedure_pseudo_code", {
+        procedure: address,
+      });
+      answers.push({
+        name,
+        address,
+        first_call_ms: cold.ms,
+        repeat_ms: warm.ms,
+        response_bytes: cold.bytes,
+        ...quality(cold.value),
+      });
+    }
+  } catch (cause) {
+    failure = cause;
+  } finally {
+    answers.push({ server: await server.close(failure) });
+  }
+  return answers;
+};
+
+/** Symbol-bearing caller binaries with the requested functions, beside their stripped copies. */
+const targetPairs = async (root, names) => {
+  const pairs = [];
+  for (const flavor of (await readdir(root)).sort()) {
+    const directory = join(root, flavor);
+    if (!(await stat(directory)).isDirectory()) continue;
+    for (const file of (await readdir(directory)).sort()) {
+      if (file.endsWith(".stripped")) continue;
+      const symbols = await symbolAddresses(join(directory, file), names);
+      if (symbols.size > 0) pairs.push({ flavor, directory, file, symbols });
+    }
+  }
+  return pairs;
+};
+
+/** Verify Kuna, and optionally measure Ghidra, on one binary of a pair. */
+const verifyVariant = async ({ flavor, directory, symbols }, variant) => {
+  const path = join(directory, variant);
+  const entry = { binary: `${flavor}/${variant}` };
+  entry.kuna = await verifyKuna(path, [...symbols]);
+  if (values["compare-ghidra"])
+    entry.ghidra = await measureGhidra(path, [...symbols]);
+  process.stderr.write(`verified ${entry.binary}\n`);
+  return entry;
+};
+
+const results = [];
+const failures = [];
+try {
+  kunaVersion = (
+    await execFileOutput(kuna, ["--version"], {
+      timeout: 10_000,
+      maxBuffer: 64 * 1024,
+      stopSignal: "SIGTERM",
+    })
+  ).stdout.trim();
+  let callerPairs = [];
+  if (values.targets !== undefined) {
+    const names = (values.functions ?? "").split(",").filter(Boolean);
+    assert.ok(names.length > 0, "--targets requires --functions");
+    callerPairs = await targetPairs(values.targets, names);
+    assert.ok(
+      callerPairs.length > 0,
+      `No caller-built targets contain the requested functions in ${values.targets}`,
+    );
+    const found = new Set(
+      callerPairs.flatMap(({ symbols }) => [...symbols.keys()]),
+    );
+    const missing = names.filter((name) => !found.has(name));
+    assert.deepEqual(
+      missing,
+      [],
+      "Requested functions were not found in any caller-built target",
+    );
+  }
+
+  // Source-owned fixture: always built and verified.
+  const fixtureDir = join(workspace, "fixture");
+  await mkdir(fixtureDir);
+  const source = join(fixtureDir, "fixture.c");
+  await writeFile(source, FIXTURE_SOURCE);
+  const built = join(fixtureDir, "rea-kuna-fixture");
+  await exec(process.env.REA_CC ?? "cc", ["-O2", "-o", built, source]);
+  const stripped = `${built}.stripped`;
+  await writeFile(stripped, await readFile(built));
+  await exec(process.env.REA_STRIP ?? "strip", [stripped]);
+  const fixtureFunctions = await symbolAddresses(built, [
+    "rea_checksum",
+    "rea_classify",
+    "main",
+  ]);
+  assert.equal(fixtureFunctions.size, 3, "Fixture symbols were not found");
+  const fixtureMain = fixtureFunctions.get("main");
+  fixtureFunctions.delete("main");
+  for (const binary of [built, stripped])
+    results.push({
+      binary: binary.slice(workspace.length + 1),
+      kuna: await verifyKuna(binary, [...fixtureFunctions], fixtureMain, [
+        "＿φ( °-°)/ REA unicode marker",
+        "REA wide marker",
+      ]),
+    });
+
+  // Caller-built matrix.
+  for (const pair of callerPairs)
+    for (const variant of [pair.file, `${pair.file}.stripped`])
+      results.push(await verifyVariant(pair, variant));
+} catch (cause) {
+  failures.push(cause);
+}
+// Failure paths need the same process evidence as successful verification.
+for (const retained of [...retainedNative]) {
+  try {
+    const stopped = await retained.owner?.stop();
+    if (stopped !== undefined && stopped.status !== "incomplete")
+      retainedNative.delete(retained);
+  } catch (cause) {
+    failures.push(cause);
+  }
+}
+const lifecycle = await completeVerifierRun(run);
+let cleanupComplete = pendingServers.size === 0 && retainedNative.size === 0;
+try {
+  assertVerifierCleanupComplete(lifecycle.process_lineage);
+} catch (cause) {
+  cleanupComplete = false;
+  failures.push(cause);
+}
+if (cleanupComplete)
+  try {
+    await rm(workspace, { recursive: true, force: true });
+  } catch (cause) {
+    cleanupComplete = false;
+    failures.push(cause);
+  }
+const describeFailure = (cause) => ({
+  message: cause instanceof Error ? cause.message : String(cause),
+  ...(cause instanceof AggregateError
+    ? { causes: cause.errors.map(describeFailure) }
+    : {}),
+});
+const report = {
+  lane: "kuna",
+  status: failures.length === 0 ? "passed" : "failed",
+  kuna_version: kunaVersion,
+  platform: `${process.platform}/${process.arch}`,
+  verifier_run: lifecycle,
+  results,
+  limitations: [
+    "Targets are analyzed statically; they are never executed.",
+    "Memory is the sampled peak resident set of the MCP server process tree; CPU is its sampled cumulative time. A short-lived peak between 200 ms samples is not observed.",
+    "Quality signals count gotos and warning markers only; they are not a correctness judgement and not a DecBench reproduction.",
+    "Response bytes are UTF-8 serialization sizes. Model token usage, tool schema costs and agent task completion were not measured.",
+  ],
+  cleanup: cleanupComplete ? "complete" : "incomplete",
+  ...(cleanupComplete ? {} : { retained_workspace: workspace }),
+  ...(failures.length === 0 ? {} : { failures: failures.map(describeFailure) }),
+};
+if (values.report !== undefined)
+  await writeFile(values.report, `${JSON.stringify(report, null, 2)}\n`);
+process.stdout.write(`${JSON.stringify(report)}\n`);
+if (failures.length > 0)
+  throw new AggregateError(
+    failures,
+    "Kuna verification failed; see the report for cleanup evidence",
+  );

scripts/verify-repository-skill.mjs

@@ -1,7 +1,7 @@
 import { cp, mkdir, readFile, readdir } from "node:fs/promises";
 import { dirname, join, relative } from "node:path";
 
-import { exec, pathExists } from "./lib/verify-package-core.mjs";
+import { exec, execNpm, pathExists } from "./lib/verify-package-core.mjs";
 
 /** Exercise Skills' default root discovery without ignored build outputs. */
 export async function verifyRepositorySkill({ root, workspace }) {
@@ -34,8 +34,7 @@ export async function verifyRepositorySkill({ root, workspace }) {
   await mkdir(consumer, { recursive: true });
   await mkdir(home, { recursive: true });
   const skillsVersion = "1.7.2";
-  await exec(
-    "npm",
+  await execNpm(
     [
       "exec",
       "--yes",

scripts/verify-wasm-artifact.mjs

@@ -24,6 +24,7 @@ import {
   requireMcpToolError,
 } from "./lib/mcp-verifier-results.mjs";
 import { createVerifierRun, completeVerifierRun } from "./lib/verifier-run.mjs";
+import { WABT_OPERATION_TIMEOUT_MS } from "./lib/wabt-verifier-timeouts.mjs";
 
 const directory = process.env.REA_WABT_BIN_DIRECTORY;
 if (!isAbsolute(directory ?? "")) {
@@ -76,6 +77,8 @@ try {
   throw cause;
 }
 const client = new Client({ name: "wabt-artifact-verifier", version: "1" });
+const callTool = (request) =>
+  client.callTool(request, { timeout: WABT_OPERATION_TIMEOUT_MS });
 const transport = new StdioClientTransport({
   command: process.execPath,
   args: [entrypoint, "mcp"],
@@ -128,7 +131,7 @@ try {
                 TMP: childTempRoot,
                 TEMP: childTempRoot,
               },
-              timeout: 120_000,
+              timeout: WABT_OPERATION_TIMEOUT_MS,
               maxBuffer: 64 * 1024 * 1024,
             },
           )
@@ -238,7 +241,7 @@ try {
     const cliValue = await inspectCli(input);
     assert.equal(cliValue.category, undefined, JSON.stringify(cliValue));
     const cli = parseEvidence(cliValue);
-    const reply = await client.callTool({
+    const reply = await callTool({
       name: "inspect_wasm_artifact",
       arguments: input,
     });
@@ -332,7 +335,7 @@ try {
         },
       );
     }
-    const bundleReply = await client.callTool({
+    const bundleReply = await callTool({
       name: "get_evidence_bundle",
       arguments: {},
     });
@@ -362,7 +365,7 @@ try {
         JSON.stringify(cliError),
       );
       const error = requireMcpToolError(
-        await client.callTool({
+        await callTool({
           name: "inspect_wasm_artifact",
           arguments: invalidInput,
         }),
@@ -370,7 +373,7 @@ try {
       assert.equal(error.category, "invalid_input");
       const partial = error.details.partial_observation;
       assert.equal(partial.kind, "retained-evidence");
-      const failedBundleReply = await client.callTool({
+      const failedBundleReply = await callTool({
         name: "get_evidence_bundle",
         arguments: {},
       });