refactor(native): keep matching allowance recovery with its parser

Recovery text and display formatting move beside the launch parser under
src/config, so the admission only enforces the budget. The 1 GiB maximum is
restated as an REA policy: the canonical digest streams, so it was not
bounded by a single serialized string.

Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>

docs/design/limits-and-recovery.md

@@ -169,6 +169,7 @@ cannot partially apply. Clients coordinating writes can supply
 | `capture.decoder_old_generation_mib`                          | Next owned capture decoder                                             |
 | `javascript.analysis_timeout_ms`, `javascript.max_heap_mb`    | Next source analysis / new JavaScript worker                           |
 | `wasm.command_timeout_ms`                                     | Next WABT operation                                                    |
+| `native.matching_representation_bytes`                        | Next `match_native_functions` request                                  |
 
 ### Precedence and lifetime
 
@@ -243,6 +244,8 @@ Inspection then reports the runtime value while retaining the launch error.
 Reset exposes the invalid launch state again; it does not repair or replace it
 with the built-in default. Provider availability and execution must resolve the
 same effective setting so readiness changes along with repair and reset.
+`REA_NATIVE_MATCHING_REPRESENTATION_BYTES` is validated the same way, by
+`match_native_functions` alone.
 
 ## Keep a fixed ceiling honest
 

docs/native-function-matching.md

@@ -117,12 +117,23 @@ in the JSON for all groups inline. Import the bundle into MCP for views, or
 extract its matching Evidence record to a JSON file for the existing CLI
 `inspect-analysis-view` `evidence-file` source. Input bundles are unchanged.
 
-Representation admission is bounded at 96 MiB before cloning selected observations
+Representation admission is bounded before cloning selected observations
 and expanding matching indexes and repeated per-function source links. Work yields to cancellation. No worker/provider
 concurrency is introduced; this budget is not a bound on total process RSS.
+The allowance defaults to 96 MiB and is the runtime setting
+`native.matching_representation_bytes`, from 1 byte to 1 GiB. On MCP, call
+`update_analysis_settings` with that setting and retry; it applies to the next
+operation without restarting REA. For CLI or future REA processes, set
+`REA_NATIVE_MATCHING_REPRESENTATION_BYTES` in the launch environment; `rea
+setup` copies it into client registrations. An invalid launch value is refused
+by matching only, and a runtime value repairs it. A refusal carries
+`details.limit` with the effective value, its source and bounds. Raising the
+allowance lets matching retain more in the REA process. The 1 GiB maximum is
+an REA policy, not a host-capacity claim, and peak heap during a request can
+exceed the allowance.
 Summary delivery happens after complete matching Evidence is constructed and
 retained. It reduces the initial reply, but does not avoid that construction or
-raise the allowance. There is no runtime override. Repeated provenance remains
+raise the allowance. Repeated provenance remains
 part of the complete member contract; splitting inventories into separate matches
 would change global name/body uniqueness and is not an equivalent workaround.
 

docs/releasing.md

@@ -112,6 +112,13 @@ creation or retry mutations. An internal GraphQL error does not establish API
 quota exhaustion or prove that query size caused the failure. Publication
 continues through the pinned release-please action.
 
+A nonzero manifest version must resolve to a GitHub release or tag before
+proposal history is collected. If publication has not created that boundary
+yet, preparation stops before opening or updating a PR; wait for publication
+before retrying. Missing manifest versions and `0.0.0` still allow an initial
+release. This prevents historical `Release-As` directives from being replayed
+as unreleased changes.
+
 When upgrading release-please, review the upstream manifest implementation,
 refresh the versioned patch and run the release proposal and workflow boundary
 tests. Version mismatch or a patch that neither applies cleanly nor matches an

patches/release-please+17.3.0.patch

@@ -105,7 +105,22 @@
  }
 --- a/build/src/manifest.js
 +++ b/build/src/manifest.js
-@@ -261,9 +261,20 @@
+@@ -248,6 +248,14 @@
+                 releasesFound++;
+             }
+         }
++        // A recorded version requires its release boundary, even while a
++        // concurrent publisher has not created the matching release/tag yet.
++        for (const path of Object.keys(strategiesByPath)) {
++            const expectedVersion = this.releasedVersions[path];
++            if (expectedVersion && expectedVersion.toString() !== '0.0.0' && !releasesByPath[path]) {
++                throw new Error(`Missing expected release for path ${path} at version ${expectedVersion.toString()}: no matching release or tag found. Refusing to bootstrap an already released package.`);
++            }
++        }
+         const needsBootstrap = releasesFound < expectedReleases;
+         if (releasesFound < expectedReleases) {
+             this.logger.warn(`Expected ${expectedReleases} releases, only found ${releasesFound}`);
+@@ -261,9 +269,20 @@
          this.logger.info('Collecting commits since all latest releases');
          const commits = [];
          this.logger.debug(`commit search depth: ${this.commitSearchDepth}`);
@@ -127,7 +142,7 @@
              batchSize: this.commitBatchSize,
          });
          const releaseShas = new Set(Object.values(releaseShasByPath));
-@@ -272,6 +283,7 @@
+@@ -272,6 +291,7 @@
          // sha => release pull request
          const releasePullRequestsBySha = {};
          let releaseCommitsFound = 0;
@@ -135,7 +150,7 @@
          for await (const commit of commitGenerator) {
              if (releaseShas.has(commit.sha)) {
                  if (commit.pullRequest) {
-@@ -284,14 +296,17 @@
+@@ -284,14 +304,17 @@
              }
              if (this.lastReleaseSha && this.lastReleaseSha === commit.sha) {
                  this.logger.info(`Using configured lastReleaseSha ${this.lastReleaseSha} as last commit.`);
@@ -153,7 +168,7 @@
                  break;
              }
              commits.push({
-@@ -301,16 +316,18 @@
+@@ -301,16 +324,18 @@
                  pullRequest: commit.pullRequest,
              });
          }

src/application/SetupRegistrationEnvironment.ts

@@ -11,6 +11,7 @@ const SELECTED_REGISTRATION_SETTINGS = [
   "REA_HOPPER_STARTUP_TIMEOUT_MS",
   "REA_JEB_MCP_TIMEOUT_MS",
   "REA_MCP_INPUT_SCHEMA_PROFILE",
+  "REA_NATIVE_MATCHING_REPRESENTATION_BYTES",
   "REA_REGEX_MATCHING_DEADLINE_MS",
   "REA_REGEX_WORKER_HEAP_REQUEST_MIB",
   "REA_MCP_INITIALIZE_BUDGET_MS",

src/application/native/NativeFunctionMatchingService.test.ts

@@ -4,6 +4,7 @@ import { matchNativeFunctions } from "./NativeFunctionMatchingService.js";
 import { nativeFunctionMatchingSchema } from "../../domain/native/functionMatching.js";
 import { createEvidence } from "../../domain/evidence.js";
 import { createAnalysisProfile } from "../../domain/analysisProfile.js";
+import { AnalysisResourceConstraintError } from "../../domain/analysisErrorCore.js";
 import { functionDossierSchema } from "../../domain/hopperValues.js";
 import { procedureInfoSchema } from "../../domain/native/procedureInfo.js";
 import {
@@ -791,6 +792,69 @@ it("cooperatively preserves the exact cancellation reason and rejects expansion
     expect(large.error._tag).toBe("AnalysisResourceConstraintError");
 });
 
+it("enforces the caller-resolved representation allowance and names its setting", async () => {
+  const rows = (count: number) =>
+    Array.from({ length: count }, (_, i) => ({
+      address: `0x${(0x1000 + i * 16).toString(16)}`,
+      value: `function_${i}`,
+    }));
+  const small = {
+    left: nativeMatchingInventory("1", rows(100)),
+    right: nativeMatchingInventory("2", rows(100)),
+  };
+  const lowered = await matchNativeFunctions(small, {
+    representationAllowance: { maximumBytes: 64 * 1024, source: "runtime" },
+  });
+  expect(lowered.ok).toBe(false);
+  if (lowered.ok) throw new Error("Lowered allowance admitted the request");
+  expect(lowered.error).toMatchObject({
+    _tag: "AnalysisResourceConstraintError",
+    reportedLimits: { maximum_bytes: 64 * 1024 },
+    retryable: false,
+    limit: {
+      setting: "native.matching_representation_bytes",
+      effective_value: 64 * 1024,
+      source: "runtime",
+      unit: "bytes",
+      minimum: 1,
+      maximum: 1024 * 1024 * 1024,
+      applies_at: "next_operation",
+      agent_editable: true,
+    },
+  });
+  if (!(lowered.error instanceof AnalysisResourceConstraintError))
+    throw lowered.error;
+  expect(lowered.error.remediationAction).toContain(
+    "update_analysis_settings with setting native.matching_representation_bytes",
+  );
+  expect(lowered.error.remediationAction).toContain(
+    "REA_NATIVE_MATCHING_REPRESENTATION_BYTES",
+  );
+  expect((await matchNativeFunctions(small)).ok).toBe(true);
+  // A request refused by the 96 MiB default fits a raised allowance unchanged.
+  const large = {
+    left: nativeMatchingInventory("1", rows(15_000)),
+    right: nativeMatchingInventory("2", rows(15_000)),
+  };
+  const refused = await matchNativeFunctions(large);
+  expect(refused.ok).toBe(false);
+  if (!refused.ok)
+    expect(refused.error).toMatchObject({
+      limit: { effective_value: 96 * 1024 * 1024, source: "default" },
+    });
+  const raised = await matchNativeFunctions(large, {
+    representationAllowance: {
+      maximumBytes: 256 * 1024 * 1024,
+      source: "setting",
+    },
+  });
+  if (!raised.ok) throw raised.error;
+  expect(
+    nativeFunctionMatchingSchema.parse(raised.value.evidence.normalized_result)
+      .summary.matched,
+  ).toBe(15_000);
+});
+
 it("keeps duplicate candidate storage linear and emits every input occurrence exactly once", async () => {
   const entries = Array.from({ length: 1000 }, (_, i) => ({
     address: `0x${i.toString(16)}`,

src/application/native/NativeFunctionMatchingService.ts

@@ -18,9 +18,15 @@ import { err, ok, type Result } from "../../domain/result.js";
 import type { EvidenceLookup } from "../EvidenceInputResolver.js";
 import { resolveNativeMatchingSources } from "./NativeMatchingSources.js";
 import type { ExecutionOptions } from "../AnalysisProvider.js";
+import type { NativeMatchingAllowance } from "../../config/nativeMatchingAllowance.js";
 import { FUNCTION_COMPARISON_PROVIDER } from "../../domain/comparisonEvidenceIdentity.js";
 
 const OPERATION = "match_native_functions";
+
+/** Effective admission budget, separate from caller-authored Evidence parameters. */
+export interface NativeFunctionMatchingOptions extends ExecutionOptions {
+  readonly representationAllowance?: NativeMatchingAllowance;
+}
 export interface NativeFunctionMatchingResult {
   readonly evidence: Evidence;
   readonly sources: readonly Evidence[];
@@ -30,10 +36,14 @@ export interface NativeFunctionMatchingResult {
 /** Pair existing observations through one source/analysis admission. */
 export const matchNativeFunctions = async (
   rawInput: unknown,
-  options?: ExecutionOptions,
+  options?: NativeFunctionMatchingOptions,
   lookup?: EvidenceLookup,
 ): Promise<Result<NativeFunctionMatchingResult, AnalysisError>> => {
-  const admission = new NativeMatchingAdmission(OPERATION, options?.signal);
+  const admission = new NativeMatchingAdmission(
+    OPERATION,
+    options?.signal,
+    options?.representationAllowance,
+  );
   try {
     await setImmediate();
     await admission.checkpoint();
@@ -171,10 +181,14 @@ export const matchNativeFunctionsFromBundles = async (
   input: MatchNativeFunctionsInput,
   paths: readonly string[],
   resources: ArtifactResourceScope,
-  options?: ExecutionOptions,
+  options?: NativeFunctionMatchingOptions,
 ): Promise<Result<NativeFunctionMatchingResult, AnalysisError>> => {
   try {
-    const admission = new NativeMatchingAdmission(OPERATION, options?.signal);
+    const admission = new NativeMatchingAdmission(
+      OPERATION,
+      options?.signal,
+      options?.representationAllowance,
+    );
     await admission.admit(input);
     const loaded = await loadNativeMatchingBundleSources({
       input,

src/application/native/NativeMatchingAdmission.ts

@@ -1,31 +1,51 @@
 import { setImmediate } from "node:timers/promises";
 import { AnalysisResourceConstraintError } from "../../domain/analysisErrorCore.js";
-import { fixedNativeAllowance } from "../../domain/native/nativeDeadlines.js";
-
-const NATIVE_MATCHING_REPRESENTATION_BYTES = 96 * 1024 * 1024;
+import { analysisSettingLimit } from "../../domain/analysisSettingDefinitions.js";
+import {
+  DEFAULT_NATIVE_MATCHING_ALLOWANCE,
+  nativeMatchingAllowanceRecovery,
+  nativeMatchingByteAllowance,
+  type NativeMatchingAllowance,
+} from "../../config/nativeMatchingAllowance.js";
 
 /** Budget the actual selected observations, before cloning or index allocation. */
 export class NativeMatchingAdmission {
-  #remaining = NATIVE_MATCHING_REPRESENTATION_BYTES;
+  readonly #maximum: number;
+  readonly #source: NativeMatchingAllowance["source"];
+  #remaining: number;
   #work = 0;
   readonly #seen = new WeakSet<object>();
   constructor(
     readonly operation: string,
     readonly signal?: AbortSignal,
-  ) {}
+    allowance: NativeMatchingAllowance = DEFAULT_NATIVE_MATCHING_ALLOWANCE,
+  ) {
+    // Read the accepted operation's value once, so the refusal reports the
+    // budget this request actually ran under.
+    this.#maximum = allowance.maximumBytes;
+    this.#source = allowance.source;
+    this.#remaining = this.#maximum;
+  }
   readonly checkpoint = async (bytes = 0): Promise<void> => {
     this.#remaining -= bytes;
     if (this.#remaining < 0)
       throw new AnalysisResourceConstraintError(
         this.operation,
         "capacity",
-        `Native function matching exceeds its ${String(NATIVE_MATCHING_REPRESENTATION_BYTES)}-byte (96 MiB) representation allowance. This release has no runtime override.`,
-        { maximum_bytes: NATIVE_MATCHING_REPRESENTATION_BYTES },
-        fixedNativeAllowance(
-          "The native function-matching representation allowance",
-          "bytes",
-          `${String(NATIVE_MATCHING_REPRESENTATION_BYTES)} bytes`,
-        ),
+        `Native function matching exceeds its ${nativeMatchingByteAllowance(this.#maximum)} representation allowance (native.matching_representation_bytes).`,
+        { maximum_bytes: this.#maximum },
+        {
+          retryable: false,
+          remediationAction: nativeMatchingAllowanceRecovery({
+            maximumBytes: this.#maximum,
+            source: this.#source,
+          }),
+          limit: analysisSettingLimit(
+            "native.matching_representation_bytes",
+            this.#maximum,
+            this.#source,
+          ),
+        },
       );
     this.signal?.throwIfAborted();
     if (++this.#work % 256 === 0)

src/cli.ts

@@ -147,7 +147,7 @@ export const createCli = (
   registerFirmwareCommands(cli, logger, environment);
   registerBinaryDiagnosticsCommands(cli, logger, environment);
   registerAnalysisViewCommands(cli, logger);
-  registerNativeFunctionMatchingCommands(cli, logger);
+  registerNativeFunctionMatchingCommands(cli, logger, environment);
   registerFridaCommands(cli, logger, fridaInstrumentation);
   registerEvidenceCommands(cli, logger);
   registerEnvironmentCommands(cli, logger, environment);

src/cli/nativeFunctionMatchingCommands.ts

@@ -17,11 +17,13 @@ import {
 } from "./analysisEvidenceDelivery.js";
 import { finishAnalysisCommand } from "./finishAnalysisCommand.js";
 import type { CliInstance } from "./types.js";
+import { parseNativeMatchingAllowance } from "../config/nativeMatchingAllowance.js";
 
 /** Resolve portable input bundles, then use the same read-only matching service as MCP. */
 export const registerNativeFunctionMatchingCommands = (
   cli: CliInstance,
   logger: Logger,
+  environment: Readonly<NodeJS.ProcessEnv>,
 ): void => {
   cli.command(CLI_COMMANDS.matchNativeFunctions, {
     description:
@@ -75,6 +77,8 @@ export const registerNativeFunctionMatchingCommands = (
           };
           const invalid = cliEvidenceDeliveryInputError(delivery);
           if (invalid !== undefined) return projectAnalysisError(invalid);
+          const allowance = parseNativeMatchingAllowance(environment);
+          if (!allowance.ok) return projectAnalysisError(allowance.error);
           const resources = new ArtifactResourceScope();
           let sources: readonly Evidence[] = [];
           const complete = await finishAnalysisCommand(
@@ -83,7 +87,7 @@ export const registerNativeFunctionMatchingCommands = (
                 parsed.data,
                 options.source_bundle,
                 resources,
-                { signal },
+                { signal, representationAllowance: allowance.value },
               );
               if (!result.ok) return result;
               sources = result.value.sources;

src/config/analysisSettings.ts

@@ -11,6 +11,7 @@ import {
 import { regexMatchingDeadlineMsSchema } from "./regexMatchingDeadline.js";
 import { regexWorkerHeapRequestMiBSchema } from "./regexWorkerHeapRequest.js";
 import { captureDecoderOldGenerationMiBSchema } from "./captureDecoderHeap.js";
+import { nativeMatchingRepresentationBytesSchema } from "./nativeMatchingAllowance.js";
 const environmentSchemas: Readonly<Record<string, z.ZodType<number, string>>> =
   {
     REA_ASAR_MAX_HEADER_BYTES: asarMaxHeaderBytesSchema,
@@ -22,6 +23,8 @@ const environmentSchemas: Readonly<Record<string, z.ZodType<number, string>>> =
     REA_REGEX_WORKER_HEAP_REQUEST_MIB: regexWorkerHeapRequestMiBSchema,
     REA_CAPTURE_DECODER_OLD_GENERATION_MIB:
       captureDecoderOldGenerationMiBSchema,
+    REA_NATIVE_MATCHING_REPRESENTATION_BYTES:
+      nativeMatchingRepresentationBytesSchema,
   };
 export const launchAnalysisSetting = (
   id: AnalysisSettingId,

src/config/nativeMatchingAllowance.test.ts

@@ -0,0 +1,78 @@
+import { expect, it } from "vitest";
+import { ConfigurationError } from "../domain/configurationErrors.js";
+import { parseEnvironment } from "./environment.js";
+import { runtimeNativeMatchingAllowance } from "./runtimeAnalysisSettings.js";
+import {
+  DEFAULT_NATIVE_MATCHING_ALLOWANCE,
+  NATIVE_MATCHING_ALLOWANCE_SETTING,
+  nativeMatchingRepresentationBytesConstraint,
+  parseNativeMatchingAllowance,
+} from "./nativeMatchingAllowance.js";
+import { launchAnalysisSetting } from "./analysisSettings.js";
+import { explicitSetupRegistrationEnvironment } from "../application/SetupRegistrationEnvironment.js";
+
+it("keeps the 96 MiB allowance when the launch setting is unset", () => {
+  expect(parseNativeMatchingAllowance({})).toEqual({
+    ok: true,
+    value: DEFAULT_NATIVE_MATCHING_ALLOWANCE,
+  });
+  expect(DEFAULT_NATIVE_MATCHING_ALLOWANCE.maximumBytes).toBe(96 * 1024 * 1024);
+  expect(
+    launchAnalysisSetting("native.matching_representation_bytes", {}),
+  ).toEqual({
+    ok: true,
+    value: { value: 96 * 1024 * 1024, source: "default" },
+  });
+});
+
+it("accepts decimal byte counts from 1 byte to 1 GiB as a launch setting", () => {
+  for (const bytes of [1, 268_435_456, 1024 * 1024 * 1024]) {
+    const environment = { [NATIVE_MATCHING_ALLOWANCE_SETTING]: String(bytes) };
+    expect(parseNativeMatchingAllowance(environment)).toEqual({
+      ok: true,
+      value: { maximumBytes: bytes, source: "setting" },
+    });
+    expect(
+      launchAnalysisSetting(
+        "native.matching_representation_bytes",
+        environment,
+      ),
+    ).toEqual({ ok: true, value: { value: bytes, source: "setting" } });
+  }
+  // rea setup forwards the launch seed into client registrations.
+  expect(
+    explicitSetupRegistrationEnvironment({
+      [NATIVE_MATCHING_ALLOWANCE_SETTING]: "268435456",
+      UNRELATED: "x",
+    }),
+  ).toEqual({ [NATIVE_MATCHING_ALLOWANCE_SETTING]: "268435456" });
+});
+
+it("refuses invalid launch values instead of falling back to the default", () => {
+  for (const value of ["0", "-1", "01", "1.5", "96MiB", "", "1073741825"]) {
+    const environment = { [NATIVE_MATCHING_ALLOWANCE_SETTING]: value };
+    const parsed = parseNativeMatchingAllowance(environment);
+    expect(parsed.ok).toBe(false);
+    if (parsed.ok) continue;
+    expect(parsed.error).toBeInstanceOf(ConfigurationError);
+    expect(parsed.error.message).toBe(
+      nativeMatchingRepresentationBytesConstraint,
+    );
+    expect(
+      launchAnalysisSetting("native.matching_representation_bytes", environment)
+        .ok,
+    ).toBe(false);
+    // Operation-local: global startup parsing is unaffected, and a runtime
+    // override repairs the effective allowance without editing the seed.
+    expect(parseEnvironment(environment).ok).toBe(true);
+    expect(runtimeNativeMatchingAllowance(environment)().ok).toBe(false);
+    const overridden = runtimeNativeMatchingAllowance(environment, () => ({
+      revision: 1,
+      overrides: { "native.matching_representation_bytes": 4096 },
+    }))();
+    expect(overridden).toEqual({
+      ok: true,
+      value: { maximumBytes: 4096, source: "runtime" },
+    });
+  }
+});

src/config/nativeMatchingAllowance.ts

@@ -0,0 +1,78 @@
+import {
+  DEFAULT_NATIVE_MATCHING_REPRESENTATION_BYTES,
+  MAXIMUM_NATIVE_MATCHING_REPRESENTATION_BYTES,
+} from "../domain/analysisResourceLimits.js";
+import { z } from "zod";
+
+import { ConfigurationError } from "../domain/configurationErrors.js";
+import { err, ok, type Result } from "../domain/result.js";
+
+export const NATIVE_MATCHING_ALLOWANCE_SETTING =
+  "REA_NATIVE_MATCHING_REPRESENTATION_BYTES";
+
+/** Effective native function-matching representation allowance and its source. */
+export interface NativeMatchingAllowance {
+  readonly maximumBytes: number;
+  readonly source: "default" | "setting" | "runtime";
+}
+
+export const DEFAULT_NATIVE_MATCHING_ALLOWANCE: NativeMatchingAllowance = {
+  maximumBytes: DEFAULT_NATIVE_MATCHING_REPRESENTATION_BYTES,
+  source: "default",
+};
+
+export const nativeMatchingRepresentationBytesConstraint = `${NATIVE_MATCHING_ALLOWANCE_SETTING} must be a positive decimal integer of at most ${String(MAXIMUM_NATIVE_MATCHING_REPRESENTATION_BYTES)} bytes (1 GiB); the default is ${String(DEFAULT_NATIVE_MATCHING_REPRESENTATION_BYTES)} bytes (96 MiB).`;
+
+/** Optional decimal byte count for the native function-matching allowance. */
+export const nativeMatchingRepresentationBytesSchema = z
+  .string()
+  .regex(/^[1-9]\d*$/u, {
+    error: nativeMatchingRepresentationBytesConstraint,
+  })
+  .transform(Number)
+  .pipe(
+    z.number().int().max(MAXIMUM_NATIVE_MATCHING_REPRESENTATION_BYTES, {
+      error: nativeMatchingRepresentationBytesConstraint,
+    }),
+  );
+
+/** Resolve the effective allowance from one launch environment. */
+export const parseNativeMatchingAllowance = (
+  environment: Readonly<Record<string, string | undefined>>,
+): Result<NativeMatchingAllowance, ConfigurationError> => {
+  const value = environment[NATIVE_MATCHING_ALLOWANCE_SETTING];
+  if (value === undefined) return ok(DEFAULT_NATIVE_MATCHING_ALLOWANCE);
+  const parsed = nativeMatchingRepresentationBytesSchema.safeParse(value);
+  return parsed.success
+    ? ok({ maximumBytes: parsed.data, source: "setting" })
+    : err(
+        new ConfigurationError(nativeMatchingRepresentationBytesConstraint, {
+          settings: [
+            {
+              setting: NATIVE_MATCHING_ALLOWANCE_SETTING,
+              constraint: nativeMatchingRepresentationBytesConstraint,
+            },
+          ],
+        }),
+      );
+};
+
+const MEBIBYTE = 1024 * 1024;
+
+/** Display one allowance in MiB and bytes, or bytes alone when not whole MiB. */
+export const nativeMatchingByteAllowance = (bytes: number): string =>
+  Number.isInteger(bytes / MEBIBYTE)
+    ? `${String(bytes / MEBIBYTE)} MiB / ${String(bytes)} bytes`
+    : `${String(bytes)} bytes`;
+
+/** User-visible recovery for the effective matching representation allowance. */
+export const nativeMatchingAllowanceRecovery = (
+  allowance: NativeMatchingAllowance,
+): string =>
+  [
+    `Native function matching is limited to ${nativeMatchingByteAllowance(allowance.maximumBytes)} of representation${allowance.source === "setting" ? ` by ${NATIVE_MATCHING_ALLOWANCE_SETTING}` : ""}.`,
+    `On MCP, call update_analysis_settings with setting native.matching_representation_bytes, action set, and a value in bytes up to ${nativeMatchingByteAllowance(MAXIMUM_NATIVE_MATCHING_REPRESENTATION_BYTES)} (default ${nativeMatchingByteAllowance(DEFAULT_NATIVE_MATCHING_REPRESENTATION_BYTES)}), then retry the original request. It applies to the next operation without restarting REA. For CLI or future REA processes, set ${NATIVE_MATCHING_ALLOWANCE_SETTING} in the launch environment.`,
+    "This budget is not a bound on total process RSS; raising it lets matching retain more representation in the REA process.",
+    "Splitting inventories into separate matches changes global name and body uniqueness, so it is not an equivalent workaround.",
+    "Repeating the unchanged request fails the same way.",
+  ].join(" ");

src/config/runtimeAnalysisSettings.ts

@@ -1,4 +1,6 @@
 import type { AnalysisSettingsReader } from "../domain/analysisSettings.js";
+import type { ConfigurationError } from "../domain/configurationErrors.js";
+import { ok, type Result } from "../domain/result.js";
 import type { AppConfig } from "./types.js";
 import {
   parseAsarHeaderAdmission,
@@ -8,6 +10,10 @@ import {
   resolveCaptureDecoderHeap,
   type CaptureDecoderHeap,
 } from "./captureDecoderHeap.js";
+import {
+  parseNativeMatchingAllowance,
+  type NativeMatchingAllowance,
+} from "./nativeMatchingAllowance.js";
 
 /** Typed views read the enclosing operation snapshot, never the ambient environment. */
 export const runtimeAnalysisConfig = (
@@ -111,3 +117,19 @@ export const runtimeCaptureDecoderHeap = (
         },
       };
 };
+/**
+ * Resolve the accepted operation's allowance on each call. An invalid launch
+ * value is refused only by the operation it bounds, so MCP stays available
+ * and a runtime override can repair it.
+ */
+export const runtimeNativeMatchingAllowance =
+  (
+    environment: Readonly<Record<string, string | undefined>>,
+    read?: AnalysisSettingsReader,
+  ): (() => Result<NativeMatchingAllowance, ConfigurationError>) =>
+  () => {
+    const override = read?.().overrides["native.matching_representation_bytes"];
+    return override === undefined
+      ? parseNativeMatchingAllowance(environment)
+      : ok({ maximumBytes: override, source: "runtime" });
+  };

src/domain/analysisResourceLimits.ts

@@ -14,6 +14,17 @@ export const DEFAULT_ASAR_MAX_HEADER_BYTES = 16 * 1024 * 1024;
  */
 export const MAXIMUM_ASAR_MAX_HEADER_BYTES = 256 * 1024 * 1024;
 
+/** Native function-matching representation admitted when the setting is unset. */
+export const DEFAULT_NATIVE_MATCHING_REPRESENTATION_BYTES = 96 * 1024 * 1024;
+
+/**
+ * Largest configurable matching admission. This is an REA policy ceiling, not
+ * a claim about host capacity: the allowance approximates the heap
+ * representation matching retains, and peak heap during a request can exceed
+ * it. A lower value only refuses more requests, so the setting has no floor.
+ */
+export const MAXIMUM_NATIVE_MATCHING_REPRESENTATION_BYTES = 1024 * 1024 * 1024;
+
 /** Default absolute deadline for Ghidra import, analysis, bridge, and readiness. */
 export const DEFAULT_GHIDRA_STARTUP_TIMEOUT_MS = 330_000;
 

src/domain/analysisSettingDefinitions.ts

@@ -16,6 +16,8 @@ import {
   CAPTURE_DECODER_SEMI_SPACE_MIB,
   MAXIMUM_CAPTURE_DECODER_OLD_GENERATION_MIB,
   DEFAULT_JADX_OPERATION_TIMEOUT_MS,
+  DEFAULT_NATIVE_MATCHING_REPRESENTATION_BYTES,
+  MAXIMUM_NATIVE_MATCHING_REPRESENTATION_BYTES,
 } from "./analysisResourceLimits.js";
 import {
   JAVASCRIPT_ANALYSIS_RESOURCE_DEFAULTS,
@@ -192,6 +194,16 @@ export const ANALYSIS_SETTINGS = {
     operations: ["inspect_wasm_artifact"],
     parameter: "command_timeout_ms",
   },
+  "native.matching_representation_bytes": {
+    environment: "REA_NATIVE_MATCHING_REPRESENTATION_BYTES",
+    defaultValue: DEFAULT_NATIVE_MATCHING_REPRESENTATION_BYTES,
+    minimum: 1,
+    maximum: MAXIMUM_NATIVE_MATCHING_REPRESENTATION_BYTES,
+    unit: "bytes",
+    appliesAt: "next_operation",
+    provider: "rea-function-comparison",
+    operations: ["match_native_functions"],
+  },
 } as const satisfies Record<AnalysisSettingId, SettingDefinition>;
 export const analysisSettingIds = Object.keys(
   ANALYSIS_SETTINGS,

src/domain/analysisSettings.ts

@@ -11,6 +11,7 @@ export interface AnalysisSettingValues {
   readonly "javascript.analysis_timeout_ms": number;
   readonly "javascript.max_heap_mb": number;
   readonly "wasm.command_timeout_ms": number;
+  readonly "native.matching_representation_bytes": number;
 }
 export type AnalysisSettingId = keyof AnalysisSettingValues;
 export interface AnalysisSettingsSnapshot {

src/server/registerNativeFunctionMatchingTool.ts

@@ -9,21 +9,34 @@ import { toolRegistrationOptions } from "./toolRegistrationOptions.js";
 import { recordEvidenceSources } from "../application/investigation/recordEvidenceSources.js";
 import { ok } from "../domain/result.js";
 import type { Logger } from "pino";
+import { runtimeNativeMatchingAllowance } from "../config/runtimeAnalysisSettings.js";
 
 /** Bind one named contract to the same retained-Evidence workflow used by CLI. */
 export const registerNativeFunctionMatchingTool = (
   server: EvidenceMcpServer,
   session: BinarySessionPort,
   logger: Logger,
+  environment: Readonly<Record<string, string | undefined>>,
 ): void => {
   const contract = toolContract("match_native_functions");
+  // Reads each accepted operation's settings snapshot over the launch value.
+  const resolveAllowance = runtimeNativeMatchingAllowance(
+    environment,
+    server.analysisSettings?.read,
+  );
   const evidenceById = session.evidenceForAnalysis.bind(session);
   const recordEvidence: BinarySessionPort["recordEvidence"] = (evidence) =>
     session.recordEvidence(evidence);
   const handler = createEvidenceToolHandler(
     server,
     async (input, options) => {
-      const result = await matchNativeFunctions(input, options, evidenceById);
+      const allowance = resolveAllowance();
+      if (!allowance.ok) return allowance;
+      const result = await matchNativeFunctions(
+        input,
+        { ...options, representationAllowance: allowance.value },
+        evidenceById,
+      );
       if (!result.ok) return result;
       const recorded = recordEvidenceSources(
         recordEvidence,

src/server/registerSessionTools.ts

@@ -411,7 +411,12 @@ export const registerSessionTools = (
   registerProcessComparisonTool(server, session, compareContract);
   registerArtifactComparisonTool(server, session, compareArtifactsContract);
   registerFunctionComparisonTool(server, session, compareFunctionsContract);
-  registerNativeFunctionMatchingTool(server, session, logger);
+  registerNativeFunctionMatchingTool(
+    server,
+    session,
+    logger,
+    options.environment,
+  );
   registerBundleComparisonTool(
     server,
     session,

tests/acceptance/analysisSettingsMcp.test.ts

@@ -7,6 +7,7 @@ import { createTestTempDirectory } from "../fixtures/temporaryDirectory.js";
 import { join } from "node:path";
 import { connectLocalToolsMcp } from "../fixtures/localToolsMcp.js";
 import { asarHeaderBytes } from "../fixtures/asarHeader.js";
+import { nativeMatchingNamedInventory } from "../fixtures/nativeFunctionMatching.js";
 
 it("advertises exact contracts and recovers a full large-index archive over one MCP connection", async () => {
   const root = await createTestTempDirectory("rea-runtime-settings-");
@@ -171,3 +172,117 @@ it.each(["0", "2147483648"])(
   },
   30000,
 );
+
+it("lowers, restores and seeds the native matching allowance over MCP", async () => {
+  const rows = Array.from({ length: 200 }, (_, i) => ({
+    address: `0x${(0x1000 + i * 16).toString(16)}`,
+    value: `function_${i}`,
+  }));
+  const request = {
+    left: nativeMatchingNamedInventory("1", rows),
+    right: nativeMatchingNamedInventory("2", rows),
+  };
+  const limitOf = (result: {
+    content: readonly { type: string; text?: string }[];
+  }) => {
+    const text = result.content.find((item) => item.type === "text")?.text;
+    if (text === undefined) throw new Error("Missing projected error");
+    return JSON.parse(text).error.details.limit as unknown;
+  };
+  const runtime = await connectLocalToolsMcp();
+  try {
+    expect(
+      (await runtime.call("match_native_functions", request)).isError,
+    ).not.toBe(true);
+    await runtime.call("update_analysis_settings", {
+      changes: [
+        {
+          setting: "native.matching_representation_bytes",
+          action: "set",
+          value: 4096,
+        },
+      ],
+    });
+    const refused = await runtime.call("match_native_functions", request);
+    expect(refused.isError).toBe(true);
+    expect(limitOf(refused)).toMatchObject({
+      setting: "native.matching_representation_bytes",
+      effective_value: 4096,
+      source: "runtime",
+      agent_editable: true,
+    });
+    await runtime.call("update_analysis_settings", {
+      changes: [
+        { setting: "native.matching_representation_bytes", action: "reset" },
+      ],
+    });
+    expect(
+      (await runtime.call("match_native_functions", request)).isError,
+    ).not.toBe(true);
+  } finally {
+    await runtime.client.close();
+  }
+  const seeded = await connectLocalToolsMcp({
+    REA_NATIVE_MATCHING_REPRESENTATION_BYTES: "4096",
+  });
+  try {
+    expect(
+      (
+        await seeded.call("inspect_analysis_settings", {
+          operation: "match_native_functions",
+        })
+      ).structuredContent,
+    ).toMatchObject({
+      settings: [
+        {
+          setting: "native.matching_representation_bytes",
+          value: 4096,
+          launch_value: 4096,
+          default_value: 100663296,
+          source: "setting",
+          environment: "REA_NATIVE_MATCHING_REPRESENTATION_BYTES",
+        },
+      ],
+    });
+    const refused = await seeded.call("match_native_functions", request);
+    expect(refused.isError).toBe(true);
+    expect(limitOf(refused)).toMatchObject({
+      effective_value: 4096,
+      source: "setting",
+    });
+  } finally {
+    await seeded.client.close();
+  }
+  // An invalid seed is refused by matching alone; MCP stays available and a
+  // runtime override repairs the effective allowance.
+  const invalid = await connectLocalToolsMcp({
+    REA_NATIVE_MATCHING_REPRESENTATION_BYTES: "0",
+  });
+  try {
+    expect((await invalid.call("binary_session", {})).isError).not.toBe(true);
+    const refused = await invalid.call("match_native_functions", request);
+    expect(refused.isError).toBe(true);
+    const text = refused.content.find((item) => item.type === "text");
+    if (text?.type !== "text") throw new Error("Missing projected error");
+    expect(JSON.parse(text.text).error).toMatchObject({
+      code: "configuration_invalid",
+      details: {
+        settings: [{ setting: "REA_NATIVE_MATCHING_REPRESENTATION_BYTES" }],
+      },
+    });
+    await invalid.call("update_analysis_settings", {
+      changes: [
+        {
+          setting: "native.matching_representation_bytes",
+          action: "set",
+          value: 100663296,
+        },
+      ],
+    });
+    expect(
+      (await invalid.call("match_native_functions", request)).isError,
+    ).not.toBe(true);
+  } finally {
+    await invalid.client.close();
+  }
+}, 30000);

tests/boundary/filesystem/releaseProposal.test.ts

@@ -124,21 +124,24 @@ function historyPage(
   };
 }
 
-function releasePage() {
+function releaseRecord(version: string, sha = baseline) {
+  const tagName = `rea-agents-${version}`;
+  return {
+    name: version,
+    tag: { name: tagName },
+    tagCommit: { oid: sha },
+    description: "",
+    isDraft: false,
+    url: `https://github.com/fixture/rea/releases/tag/${tagName}`,
+  };
+}
+
+function releasePage(releases: ReturnType<typeof releaseRecord>[]) {
   return {
     data: {
       repository: {
         releases: {
-          nodes: [
-            {
-              name: "6.7.0",
-              tag: { name: "rea-agents-6.7.0" },
-              tagCommit: { oid: baseline },
-              description: "",
-              isDraft: false,
-              url: "https://github.com/fixture/rea/releases/tag/rea-agents-6.7.0",
-            },
-          ],
+          nodes: releases,
           pageInfo: { hasNextPage: false },
         },
       },
@@ -158,6 +161,29 @@ const defaultConfiguration = {
   },
 };
 
+function releaseFileEntries(
+  configuration: Record<string, unknown>,
+  releasedVersions: Record<string, string>,
+) {
+  const files: Record<string, unknown> = {
+    "release-please-config.json": configuration,
+    ".release-please-manifest.json": releasedVersions,
+    "package.json": {
+      name: "rea-agents",
+      version: releasedVersions["."] ?? "0.0.0",
+    },
+    "pkg/package.json": {
+      name: "rea-agents",
+      version: releasedVersions.pkg ?? "0.0.0",
+    },
+  };
+  return Object.entries(files).map(([path, value], index) => ({
+    path,
+    sha: (index + 1).toString(16).padStart(40, "0"),
+    text: JSON.stringify(value),
+  }));
+}
+
 async function releaseFixture({
   config = {},
   commits = [
@@ -168,6 +194,9 @@ async function releaseFixture({
   pullRequest = false,
   historyFailures = [],
   releaseFailures = [],
+  releasedVersions = { ".": "6.7.0", pkg: "6.7.0" },
+  releases = [releaseRecord("6.7.0")],
+  tags = [],
 }: {
   config?: Record<string, unknown>;
   commits?: CommitRecord[];
@@ -175,6 +204,9 @@ async function releaseFixture({
   pullRequest?: boolean;
   historyFailures?: HistoryFailure[];
   releaseFailures?: HistoryFailure["errors"][];
+  releasedVersions?: Record<string, string>;
+  releases?: ReturnType<typeof releaseRecord>[];
+  tags?: { name: string; commit: { sha: string } }[];
 } = {}) {
   const requests: { method: string; pathname: string }[] = [];
   const pages: HistoryVariables[] = [];
@@ -182,6 +214,7 @@ async function releaseFixture({
   const failures = [...historyFailures];
   const releaseErrors = [...releaseFailures];
   const configuration = { ...defaultConfiguration, ...config };
+  const entries = releaseFileEntries(configuration, releasedVersions);
   const github = await upstream.GitHub.create({
     owner: "fixture",
     repo: "rea",
@@ -196,7 +229,7 @@ async function releaseFixture({
         method: options.method ?? "GET",
         pathname: url.pathname,
       });
-      if (url.pathname === "/repos/fixture/rea/tags") return respond([]);
+      if (url.pathname === "/repos/fixture/rea/tags") return respond(tags);
       if (url.pathname === "/repos/fixture/rea/releases/generate-notes") {
         return respond({ body: "Generated release notes" });
       }
@@ -214,7 +247,7 @@ async function releaseFixture({
         if (query.query.includes("query releases(")) {
           const errors = releaseErrors.shift();
           if (errors) return respond({ errors });
-          return respond(releasePage());
+          return respond(releasePage(releases));
         }
         if (!query.query.includes("query pullRequestsSince(")) {
           throw new Error(`Unexpected GraphQL operation: ${query.query}`);
@@ -234,17 +267,6 @@ async function releaseFixture({
         }
         return respond(historyPage(commits, query.variables, pullRequest));
       }
-      const files: Record<string, unknown> = {
-        "release-please-config.json": configuration,
-        ".release-please-manifest.json": { ".": "6.7.0", pkg: "6.7.0" },
-        "package.json": { name: "rea-agents", version: "6.7.0" },
-        "pkg/package.json": { name: "rea-agents", version: "6.7.0" },
-      };
-      const entries = Object.entries(files).map(([path, value], index) => ({
-        path,
-        sha: (index + 1).toString(16).padStart(40, "0"),
-        text: JSON.stringify(value),
-      }));
       if (url.pathname === "/repos/fixture/rea/git/trees/main") {
         return respond({
           truncated: false,
@@ -503,6 +525,100 @@ it("collects beyond 500 commits and rejects an unobserved known release boundary
   ).toBe(true);
 });
 
+it("rejects a missing manifest release before replaying a historical version override", async () => {
+  const fixture = await releaseFixture({
+    releasedVersions: { ".": "6.8.0" },
+    releases: [releaseRecord("6.7.0", "d".repeat(40))],
+    commits: [
+      { sha: latest, message: "fix: current change", files: ["src/change.ts"] },
+      {
+        sha: baseline,
+        message: "chore: release 6.8.0",
+        files: ["package.json"],
+      },
+      {
+        sha: "c".repeat(40),
+        message: "fix: historical version override\n\nRelease-As: 0.4.0",
+        files: ["src/historical.ts"],
+      },
+    ],
+  });
+  await expect(fixture.manifest.createPullRequests()).rejects.toThrow(
+    "Missing expected release",
+  );
+  expect(fixture.pages).toEqual([]);
+  expect(
+    fixture.requests.every(
+      (request) => request.method === "GET" || request.pathname === "/graphql",
+    ),
+  ).toBe(true);
+});
+
+it("uses a tag-only manifest release and excludes older version overrides", async () => {
+  const fixture = await releaseFixture({
+    releasedVersions: { ".": "6.8.0" },
+    releases: [],
+    tags: [{ name: "rea-agents-6.8.0", commit: { sha: baseline } }],
+    commits: [
+      { sha: latest, message: "fix: current change", files: ["src/change.ts"] },
+      {
+        sha: baseline,
+        message: "chore: release 6.8.0",
+        files: ["package.json"],
+      },
+      {
+        sha: "c".repeat(40),
+        message: "fix: historical version override\n\nRelease-As: 0.4.0",
+        files: ["src/historical.ts"],
+      },
+    ],
+  });
+  const candidates = await fixture.manifest.buildPullRequests();
+  expect(candidates).toHaveLength(1);
+  expect(candidates[0]?.body.toString()).toContain("current change");
+  expect(candidates[0]?.body.toString()).not.toContain(
+    "historical version override",
+  );
+  const version = candidates[0]?.updates.find(
+    (update) => update.path === "version.txt",
+  );
+  expect(
+    version?.updater.updateContent("6.8.0 // x-release-please-version"),
+  ).toContain("6.9.0");
+  expect(
+    fixture.requests.some(
+      (request) => request.pathname === "/repos/fixture/rea/tags",
+    ),
+  ).toBe(true);
+});
+
+it.each(["omitted", "0.0.0"])(
+  "preserves initial bootstrap with an %s manifest version",
+  async (version) => {
+    const releasedVersions: Record<string, string> =
+      version === "omitted" ? {} : { ".": version };
+    const fixture = await releaseFixture({
+      releasedVersions,
+      releases: [],
+      commits: [
+        {
+          sha: latest,
+          message: "feat: initial change",
+          files: ["src/change.ts"],
+        },
+      ],
+    });
+    const candidates = await fixture.manifest.buildPullRequests();
+    expect(candidates).toHaveLength(1);
+    const versionUpdate = candidates[0]?.updates.find(
+      (update) => update.path === "version.txt",
+    );
+    expect(
+      versionUpdate?.updater.updateContent("0.0.0 // x-release-please-version"),
+    ).toContain("1.0.0");
+  },
+);
+
 it.each([
   {
     name: "timestamped GraphQL internal error",
@@ -637,6 +753,7 @@ it("preserves a reached explicit last-release override", async () => {
 
 it("preserves complete mixed bootstrap history with all known release boundaries", async () => {
   const fixture = await releaseFixture({
+    releasedVersions: { ".": "6.7.0", pkg: "0.0.0" },
     config: {
       packages: {
         ".": { "package-name": "rea-agents" },