gsd-pi 2.82.0 → 3.0.0-dev.2e8b124f7

package/src/resources/extensions/gsd/tests/merge-db-cycle.test.ts

@@ -0,0 +1,179 @@
+import test from "node:test";
+import assert from "node:assert/strict";
+import {
+  chmodSync,
+  existsSync,
+  mkdtempSync,
+  mkdirSync,
+  readFileSync,
+  realpathSync,
+  rmSync,
+  writeFileSync,
+} from "node:fs";
+import { tmpdir } from "node:os";
+import { delimiter, join } from "node:path";
+import { execFileSync } from "node:child_process";
+
+import { mergeMilestoneToMain } from "../auto-worktree.ts";
+import { closeDatabase, openDatabase } from "../gsd-db.ts";
+import { GIT_NO_PROMPT_ENV } from "../git-constants.js";
+import { _clearGsdRootCache } from "../paths.ts";
+import { _resetServiceCache } from "../worktree.ts";
+import { worktreePath } from "../worktree-manager.ts";
+
+function git(args: string[], cwd: string): string {
+  return execFileSync("git", args, {
+    cwd,
+    stdio: ["ignore", "pipe", "pipe"],
+    encoding: "utf-8",
+  }).trim();
+}
+
+function withPlatform<T>(platform: NodeJS.Platform, fn: () => T): T {
+  const descriptor = Object.getOwnPropertyDescriptor(process, "platform");
+  Object.defineProperty(process, "platform", { value: platform });
+  try {
+    return fn();
+  } finally {
+    if (descriptor) {
+      Object.defineProperty(process, "platform", descriptor);
+    }
+  }
+}
+
+function realGitPath(): string {
+  const gitExecPath = execFileSync("git", ["--exec-path"], {
+    encoding: "utf-8",
+  }).trim();
+  return join(gitExecPath, process.platform === "win32" ? "git.exe" : "git");
+}
+
+function installGitShim(bin: string, probePath: string): void {
+  const shim = join(bin, "git-proxy.cjs");
+  writeFileSync(
+    shim,
+    `
+const { appendFileSync, existsSync } = require("node:fs");
+const { join } = require("node:path");
+const { spawnSync } = require("node:child_process");
+
+const realGit = ${JSON.stringify(realGitPath())};
+const probePath = ${JSON.stringify(probePath)};
+const args = process.argv.slice(2);
+
+if (args[0] === "merge" && args[1] === "--squash") {
+  const sidecars = [
+    join(process.cwd(), ".gsd", "gsd.db-wal"),
+    join(process.cwd(), ".gsd", "gsd.db-shm"),
+  ];
+  const locked = sidecars.find((path) => existsSync(path));
+  if (locked) {
+    appendFileSync(probePath, "blocked:" + locked + "\\n");
+    console.error("error: local changes would be overwritten by merge");
+    console.error("\\t" + locked);
+    process.exit(1);
+  }
+  appendFileSync(probePath, "clean\\n");
+}
+
+const result = spawnSync(realGit, args, { stdio: "inherit", env: process.env });
+process.exit(result.status ?? 1);
+`,
+    "utf-8",
+  );
+
+  if (process.platform === "win32") {
+    writeFileSync(join(bin, "git.cmd"), `@echo off\r\nnode "%~dp0git-proxy.cjs" %*\r\n`, "utf-8");
+  } else {
+    const executable = join(bin, "git");
+    writeFileSync(executable, `#!/bin/sh\nexec node "${shim}" "$@"\n`, "utf-8");
+    chmodSync(executable, 0o755);
+  }
+}
+
+function createRepo(root: string): { repo: string; worktree: string } {
+  const repo = join(root, "repo");
+  mkdirSync(repo, { recursive: true });
+  git(["init"], repo);
+  git(["config", "user.email", "test@test.com"], repo);
+  git(["config", "user.name", "Test"], repo);
+  writeFileSync(join(repo, ".gitignore"), ".gsd/\n", "utf-8");
+  writeFileSync(join(repo, "README.md"), "# test\n", "utf-8");
+  git(["add", "."], repo);
+  git(["commit", "-m", "init"], repo);
+  git(["branch", "-M", "main"], repo);
+
+  git(["checkout", "-b", "milestone/M001"], repo);
+  writeFileSync(join(repo, "feature.txt"), "milestone change\n", "utf-8");
+  mkdirSync(join(repo, ".gsd"), { recursive: true });
+  writeFileSync(join(repo, ".gsd", "gsd.db-shm"), "milestone placeholder\n", "utf-8");
+  git(["add", "feature.txt"], repo);
+  git(["add", "-f", ".gsd/gsd.db-shm"], repo);
+  git(["commit", "-m", "feat: milestone change"], repo);
+  git(["checkout", "main"], repo);
+
+  const wt = worktreePath(repo, "M001");
+  mkdirSync(join(repo, ".gsd", "worktrees"), { recursive: true });
+  git(["worktree", "add", wt, "milestone/M001"], repo);
+  return { repo, worktree: wt };
+}
+
+test("mergeMilestoneToMain keeps the Windows DB cycle closed through squash merge", () => {
+  const savedCwd = process.cwd();
+  const originalPath = process.env.PATH ?? "";
+  const gitEnv = GIT_NO_PROMPT_ENV as NodeJS.ProcessEnv;
+  const originalGitEnvPath = gitEnv.PATH;
+  const originalHome = process.env.HOME;
+  const originalGsdHome = process.env.GSD_HOME;
+
+  const root = realpathSync(mkdtempSync(join(tmpdir(), "gsd-db-cycle-")));
+  const fakeHome = join(root, "home");
+  const bin = join(root, "bin");
+  const probePath = join(root, "merge-probe.txt");
+  mkdirSync(fakeHome, { recursive: true });
+  mkdirSync(bin, { recursive: true });
+  installGitShim(bin, probePath);
+
+  try {
+    process.env.HOME = fakeHome;
+    process.env.GSD_HOME = join(fakeHome, ".gsd");
+    _clearGsdRootCache();
+    _resetServiceCache();
+
+    const { repo, worktree } = createRepo(root);
+    mkdirSync(join(repo, ".gsd"), { recursive: true });
+
+    withPlatform("win32", () => {
+      assert.equal(openDatabase(join(repo, ".gsd", "gsd.db")), true);
+      assert.equal(existsSync(join(repo, ".gsd", "gsd.db-shm")), true);
+
+      process.env.PATH = `${bin}${delimiter}${originalPath}`;
+      gitEnv.PATH = process.env.PATH;
+      process.chdir(worktree);
+
+      const result = mergeMilestoneToMain(repo, "M001", "# M001: Windows DB cycle\n");
+      assert.equal(result.codeFilesChanged, true);
+    });
+
+    assert.equal(git(["show", "HEAD:feature.txt"], repo), "milestone change");
+    assert.equal(readFileSync(probePath, "utf-8"), "clean\n");
+  } finally {
+    closeDatabase();
+    process.chdir(savedCwd);
+    process.env.PATH = originalPath;
+    gitEnv.PATH = originalGitEnvPath;
+    if (originalHome === undefined) {
+      delete process.env.HOME;
+    } else {
+      process.env.HOME = originalHome;
+    }
+    if (originalGsdHome === undefined) {
+      delete process.env.GSD_HOME;
+    } else {
+      process.env.GSD_HOME = originalGsdHome;
+    }
+    _clearGsdRootCache();
+    _resetServiceCache();
+    if (existsSync(root)) rmSync(root, { recursive: true, force: true });
+  }
+});

package/src/resources/extensions/gsd/tests/migrate-transformer.test.ts

@@ -497,6 +497,7 @@ test('Scenario 11: Requirements edge cases', () => {
       makeRequirement('', 'Another No ID', 'validated'),
       makeRequirement('R005', 'Has ID', 'something-weird'),
       makeRequirement('R006', 'Deferred One', 'DEFERRED'),
+      makeRequirement('AUTH-7', 'Legacy ID', 'active'),
     ],
     phases: {
       '1-req-edge': makePhase('1-req-edge', 1, 'req-edge'),
@@ -510,6 +511,8 @@ test('Scenario 11: Requirements edge cases', () => {
   assert.deepStrictEqual(result.requirements[2]?.id, 'R005', 'req-edge: existing id preserved');
   assert.deepStrictEqual(result.requirements[2]?.status, 'active', 'req-edge: unknown status normalized to active');
   assert.deepStrictEqual(result.requirements[3]?.status, 'deferred', 'req-edge: uppercase DEFERRED normalized');
+  assert.deepStrictEqual(result.requirements[4]?.id, 'R003', 'req-edge: non-R legacy id gets next canonical id');
+  assert.ok(result.requirements[4]?.description.includes('Legacy ID: AUTH-7'), 'req-edge: original legacy id is preserved in description');
 });
 
 // ─── Scenario 12: Vision derivation ────────────────────────────────────────
@@ -553,6 +556,8 @@ test('Scenario 13: Decisions content', () => {
   const result = transformToGSD(project);
 
   assert.ok(result.decisionsContent.includes('decision-01'), 'decisions: extracts key-decisions from summaries');
+  assert.ok(result.decisionsContent.includes('| D001 |'), 'decisions: writes DB-importable decision ID');
+  assert.ok(result.decisionsContent.includes('| # | When | Scope | Decision | Choice | Rationale | Revisable? | Made By |'), 'decisions: writes canonical table header');
 });
 
 // ─── Scenario 14: No undefined values in output ───────────────────────────
@@ -616,4 +621,3 @@ test('Scenario 15: Empty research', () => {
 });
 
 // ─── Results ───────────────────────────────────────────────────────────────
-

package/src/resources/extensions/gsd/tests/migrate-validator-parsers.test.ts

@@ -41,6 +41,15 @@ const SAMPLE_ROADMAP = `# Project Roadmap
 - [ ] 31 — Notifications
 `;
 
+const SAMPLE_VERSION_PREFIX_ROADMAP = `# Project Roadmap
+
+## Phases
+
+- ✅ **v1.0 MVP** — Phases 1-6 (shipped 2026-02-24)
+- ✅ **v1.1 Onboarding** — Phases 7-9 (shipped 2026-03-01)
+- 🚧 **v1.8 Production** — Phases 44-53
+`;
+
 const SAMPLE_PROJECT = `# My Project
 
 A sample project for testing the migration parser.
@@ -246,6 +255,21 @@ test('parseOldRoadmap: flat format', () => {
     assert.deepStrictEqual(roadmap.phases[1].done, false, 'flat roadmap: second phase not done');
 });
 
+test('parseOldRoadmap: emoji version-prefix phase ranges', () => {
+    const roadmap = parseOldRoadmap(SAMPLE_VERSION_PREFIX_ROADMAP);
+    assert.deepStrictEqual(roadmap.milestones.length, 0, 'version roadmap: no milestone sections');
+    assert.deepStrictEqual(roadmap.phases.length, 3, 'version roadmap: 3 phase ranges');
+    assert.deepStrictEqual(roadmap.phases[0].number, 1, 'version roadmap: first range starts at phase 1');
+    assert.deepStrictEqual(roadmap.phases[0].title, 'MVP', 'version roadmap: first title');
+    assert.deepStrictEqual(roadmap.phases[0].done, true, 'version roadmap: first range done');
+    assert.deepStrictEqual(roadmap.phases[1].number, 7, 'version roadmap: second range starts at phase 7');
+    assert.deepStrictEqual(roadmap.phases[1].title, 'Onboarding', 'version roadmap: second title');
+    assert.deepStrictEqual(roadmap.phases[1].done, true, 'version roadmap: second range done');
+    assert.deepStrictEqual(roadmap.phases[2].number, 44, 'version roadmap: third range starts at phase 44');
+    assert.deepStrictEqual(roadmap.phases[2].title, 'Production', 'version roadmap: third title');
+    assert.deepStrictEqual(roadmap.phases[2].done, false, 'version roadmap: third range in progress');
+});
+
 test('parseOldRoadmap: milestone-sectioned with <details>', () => {
     const roadmap = parseOldRoadmap(SAMPLE_MILESTONE_SECTIONED_ROADMAP);
     assert.ok(roadmap.milestones.length >= 2, 'ms roadmap: has milestone sections');
@@ -387,4 +411,3 @@ test('parseOldProject', () => {
     const project = parseOldProject(SAMPLE_PROJECT);
     assert.deepStrictEqual(project, SAMPLE_PROJECT, 'project: returns raw content');
 });
-

package/src/resources/extensions/gsd/tests/migrate-writer-integration.test.ts

@@ -14,7 +14,7 @@ import { parseSummary } from '../files.ts';
 import { deriveState } from '../state.ts';
 import { invalidateAllCaches } from '../cache.ts';
 import { ensureDbOpen } from '../bootstrap/dynamic-tools.ts';
-import { closeDatabase, getAllMilestones } from '../gsd-db.ts';
+import { closeDatabase, getAllMilestones, getArtifact } from '../gsd-db.ts';
 import { importWrittenMigrationToDb } from '../migrate/command.ts';
 import type {
   GSDProject,
@@ -336,7 +336,12 @@ test('Scenario 2: Fully complete project — deriveState phase', async () => {
       assert.deepStrictEqual(preview.taskCompletionPct, 100, 'complete: preview taskCompletionPct');
       assert.deepStrictEqual(preview.requirements.total, 0, 'complete: preview requirements total');
 
+      const imported = await importWrittenMigrationToDb(base, preview);
+      assert.ok(imported.artifacts >= 6, 'complete: imports generated milestone artifacts');
+      assert.ok(getArtifact('milestones/M001/M001-VALIDATION.md') !== null, 'complete: M001-VALIDATION.md imported as artifact');
+      assert.ok(getArtifact('milestones/M001/M001-SUMMARY.md') !== null, 'complete: M001-SUMMARY.md imported as artifact');
     } finally {
+      closeDatabase();
       rmSync(base, { recursive: true, force: true });
     }
 });

package/src/resources/extensions/gsd/tests/migration-auto-check.test.ts

@@ -6,13 +6,15 @@ import test from "node:test";
 
 import { ensureDbOpen } from "../bootstrap/dynamic-tools.ts";
 import {
-  _getAdapter,
   closeDatabase,
   getAllMilestones,
+  insertMilestone,
+  insertSlice,
+  insertTask,
   getSliceTasks,
 } from "../gsd-db.ts";
 import {
-  autoImportMarkdownHierarchyIfDbMismatch,
+  checkMarkdownHierarchyAgainstDb,
   countMarkdownHierarchy,
 } from "../migration-auto-check.ts";
 import { writeGSDDirectory } from "../migrate/writer.ts";
@@ -70,7 +72,7 @@ function projectFixture(): GSDProject {
   };
 }
 
-test("migration auto-check imports markdown hierarchy when DB is empty", async () => {
+test("migration auto-check preserves empty DB and reports explicit recovery", async () => {
   const base = makeBase();
   try {
     await writeGSDDirectory(projectFixture(), base);
@@ -79,32 +81,35 @@ test("migration auto-check imports markdown hierarchy when DB is empty", async (
     assert.equal(await ensureDbOpen(base), true);
     assert.equal(getAllMilestones().length, 0, "fresh authoritative DB starts empty");
 
-    const result = await autoImportMarkdownHierarchyIfDbMismatch(base);
-    assert.equal(result.action, "imported");
+    const result = await checkMarkdownHierarchyAgainstDb(base);
+    assert.equal(result.action, "recovery-required");
     assert.equal(result.reason, "db-empty");
-    assert.deepEqual(result.afterDb, { milestones: 1, slices: 1, tasks: 1 });
-    assert.equal(getAllMilestones().length, 1);
-    assert.equal(getSliceTasks("M001", "S01").length, 1);
+    assert.deepEqual(result.afterDb, { milestones: 0, slices: 0, tasks: 0 });
+    assert.equal(result.recoveryCommand, "gsd recover");
+    assert.match(result.message ?? "", /will not import markdown automatically/);
+    assert.equal(getAllMilestones().length, 0);
+    assert.equal(getSliceTasks("M001", "S01").length, 0);
   } finally {
     cleanup(base);
   }
 });
 
-test("migration auto-check repairs DB hierarchy count mismatch", async () => {
+test("migration auto-check preserves DB on hierarchy count mismatch", async () => {
   const base = makeBase();
   try {
     await writeGSDDirectory(projectFixture(), base);
-    await autoImportMarkdownHierarchyIfDbMismatch(base);
-
-    _getAdapter()!.prepare("DELETE FROM tasks WHERE milestone_id = ? AND slice_id = ? AND id = ?").run("M001", "S01", "T01");
+    assert.equal(await ensureDbOpen(base), true);
+    insertMilestone({ id: "M001", title: "Legacy Milestone", status: "active" });
+    insertSlice({ id: "S01", milestoneId: "M001", title: "Legacy Slice", status: "pending", risk: "medium", depends: [], demo: "Legacy slice demo", sequence: 1 });
     assert.equal(getSliceTasks("M001", "S01").length, 0, "test fixture simulates stale DB task count");
 
-    const result = await autoImportMarkdownHierarchyIfDbMismatch(base);
-    assert.equal(result.action, "imported");
+    const result = await checkMarkdownHierarchyAgainstDb(base);
+    assert.equal(result.action, "recovery-required");
     assert.equal(result.reason, "count-mismatch");
     assert.deepEqual(result.beforeDb, { milestones: 1, slices: 1, tasks: 0 });
-    assert.deepEqual(result.afterDb, { milestones: 1, slices: 1, tasks: 1 });
-    assert.equal(getSliceTasks("M001", "S01").length, 1);
+    assert.deepEqual(result.afterDb, { milestones: 1, slices: 1, tasks: 0 });
+    assert.equal(result.recoveryCommand, "gsd recover");
+    assert.equal(getSliceTasks("M001", "S01").length, 0);
   } finally {
     cleanup(base);
   }
@@ -114,9 +119,12 @@ test("migration auto-check leaves matching DB hierarchy alone", async () => {
   const base = makeBase();
   try {
     await writeGSDDirectory(projectFixture(), base);
-    await autoImportMarkdownHierarchyIfDbMismatch(base);
+    assert.equal(await ensureDbOpen(base), true);
+    insertMilestone({ id: "M001", title: "Legacy Milestone", status: "active" });
+    insertSlice({ id: "S01", milestoneId: "M001", title: "Legacy Slice", status: "pending", risk: "medium", depends: [], demo: "Legacy slice demo", sequence: 1 });
+    insertTask({ id: "T01", sliceId: "S01", milestoneId: "M001", title: "Legacy Task", status: "pending" });
 
-    const result = await autoImportMarkdownHierarchyIfDbMismatch(base);
+    const result = await checkMarkdownHierarchyAgainstDb(base);
     assert.equal(result.action, "none");
     assert.equal(result.reason, "in-sync");
     assert.deepEqual(result.markdown, { milestones: 1, slices: 1, tasks: 1 });

package/src/resources/extensions/gsd/tests/native-git-bridge-exec-fallback.test.ts

@@ -13,17 +13,20 @@
 import { describe, test, beforeEach, afterEach } from "node:test";
 import assert from "node:assert/strict";
 import { chmodSync, existsSync, mkdtempSync, writeFileSync, readFileSync, rmSync } from "node:fs";
-import { join } from "node:path";
+import { delimiter, join } from "node:path";
 import { tmpdir } from "node:os";
 import { execFileSync } from "node:child_process";
 import {
   assertWorktreeMaterialized,
+  nativeBranchList,
   nativeBranchDelete,
   nativeCommit,
+  nativeGetCurrentBranch,
   nativeIsRepo,
   nativeResetHard,
   nativeWorktreeAdd,
 } from "../native-git-bridge.js";
+import { GIT_NO_PROMPT_ENV } from "../git-constants.js";
 
 // Note: prior static-analysis tests that scanned native-git-bridge.ts for
 // the raw shell-spawn pattern were removed under #4827 — the integration
@@ -78,6 +81,55 @@ describe("native-git-bridge #4180: fallback runtime behaviour", () => {
     assert.equal(subject, "test: regression commit #4180");
   });
 
+  test("nativeCommit retries once after transient ENOBUFS from git", (t) => {
+    const bin = mkdtempSync(join(tmpdir(), "ngb-enobufs-bin-"));
+    t.after(() => rmSync(bin, { recursive: true, force: true }));
+
+    const realGit = execFileSync("git", ["--exec-path"], { encoding: "utf-8" }).trim();
+    const attempts = join(bin, "attempts.txt");
+    const fakeGit = join(bin, "fake-git.cjs");
+    writeFileSync(fakeGit, `
+const { appendFileSync, readFileSync } = require("node:fs");
+const { spawnSync } = require("node:child_process");
+const attempts = ${JSON.stringify(attempts)};
+const realGit = ${JSON.stringify(join(realGit, process.platform === "win32" ? "git.exe" : "git"))};
+appendFileSync(attempts, "1");
+if (process.argv[2] === "commit" && readFileSync(attempts, "utf-8").length === 1) {
+  console.error("spawnSync git ENOBUFS");
+  process.exit(1);
+}
+const result = spawnSync(realGit, process.argv.slice(2), { stdio: "inherit" });
+process.exit(result.status ?? 1);
+`, "utf-8");
+
+    if (process.platform === "win32") {
+      writeFileSync(join(bin, "git.cmd"), `@echo off\r\nnode "${fakeGit}" %*\r\n`, "utf-8");
+    } else {
+      const shim = join(bin, "git");
+      writeFileSync(shim, `#!/bin/sh\nexec node "${fakeGit}" "$@"\n`, "utf-8");
+      chmodSync(shim, 0o755);
+    }
+
+    writeFileSync(join(repo, "file.txt"), "retry commit\n");
+    git(["add", "."], repo);
+
+    const originalPath = process.env.PATH ?? "";
+    const gitEnv = GIT_NO_PROMPT_ENV as NodeJS.ProcessEnv;
+    const originalGitEnvPath = gitEnv.PATH;
+    try {
+      process.env.PATH = `${bin}${delimiter}${originalPath}`;
+      gitEnv.PATH = process.env.PATH;
+      const result = nativeCommit(repo, "test: retry ENOBUFS commit");
+      assert.ok(result !== null, "commit should succeed after retry");
+    } finally {
+      process.env.PATH = originalPath;
+      gitEnv.PATH = originalGitEnvPath;
+    }
+
+    assert.equal(readFileSync(attempts, "utf-8").length, 2);
+    assert.equal(git(["log", "-1", "--format=%s"], repo), "test: retry ENOBUFS commit");
+  });
+
   test("nativeCommit runs commit hooks", () => {
     const hookPath = join(repo, ".git", "hooks", "commit-msg");
     const marker = join(repo, "hook-ran.txt");
@@ -119,7 +171,17 @@ describe("native-git-bridge #4180: fallback runtime behaviour", () => {
   test("nativeBranchDelete throws when git cannot delete the branch", () => {
     assert.throws(
       () => nativeBranchDelete(repo, "does-not-exist"),
-      /GSD_GIT_ERROR|git branch -D does-not-exist failed/,
+      /git branch -D does-not-exist failed[\s\S]*does-not-exist/,
+    );
+  });
+
+  test("nativeGetCurrentBranch preserves git stderr in fallback errors", (t) => {
+    const dir = mkdtempSync(join(tmpdir(), "ngb-stderr-notrepo-"));
+    t.after(() => rmSync(dir, { recursive: true, force: true }));
+
+    assert.throws(
+      () => nativeGetCurrentBranch(dir),
+      /git branch --show-current failed[\s\S]*(not a git repository|not a git repo|fatal:)/,
     );
   });
 
@@ -147,4 +209,20 @@ describe("native-git-bridge #4180: fallback runtime behaviour", () => {
       "created worktree must have the .git file required by later health checks",
     );
   });
+
+  test("nativeBranchList strips linked-worktree '+' marker from fallback output", (t) => {
+    const wtPath = join(repo, ".gsd", "worktrees", "M001");
+    t.after(() => {
+      try { git(["worktree", "remove", "--force", wtPath], repo); } catch { /* noop */ }
+    });
+
+    git(["branch", "milestone/M001"], repo);
+    git(["worktree", "add", wtPath, "milestone/M001"], repo);
+
+    const listed = nativeBranchList(repo, "milestone/*");
+    assert.ok(
+      listed.includes("milestone/M001"),
+      `expected clean milestone branch name, got: ${JSON.stringify(listed)}`,
+    );
+  });
 });

package/src/resources/extensions/gsd/tests/orphaned-worktree-audit.test.ts

@@ -243,7 +243,7 @@ describe("auditOrphanedMilestoneBranches", () => {
     );
   });
 
-  test("handles milestone in DB but no branch (no-op)", () => {
+  test("milestone in DB, no branch, no worktree dir → no-op", () => {
     insertMilestone({ id: "M001", title: "Test", status: "complete" });
 
     const result = auditOrphanedMilestoneBranches(dir, "worktree");
@@ -251,4 +251,124 @@ describe("auditOrphanedMilestoneBranches", () => {
     assert.deepStrictEqual(result.recovered, []);
     assert.deepStrictEqual(result.warnings, []);
   });
+
+  test("#5879 — cleans orphaned worktree dir for complete milestone whose branch was already deleted", () => {
+    // Reproduces the postflight-stash-restore-failed scenario:
+    // 1. An earlier audit deleted milestone/M001 (merged + complete).
+    // 2. The worktree dir cleanup failed silently (logWarning only).
+    // 3. On the next startup the branch is gone, so the existing branch-keyed
+    //    loop is invisible to the orphan dir. Without the second pass, the
+    //    directory lives forever.
+    insertMilestone({ id: "M001", title: "Test", status: "complete" });
+
+    const wtDir = join(dir, ".gsd", "worktrees", "M001");
+    mkdirSync(wtDir, { recursive: true });
+    writeFileSync(join(wtDir, "leftover.txt"), "stranded from a prior session\n");
+
+    // No milestone/M001 branch — already deleted on a previous run.
+    const branches = run("git branch --list milestone/M001", dir);
+    assert.equal(branches, "", "test fixture: branch should not exist");
+
+    const result = auditOrphanedMilestoneBranches(dir, "worktree");
+
+    assert.ok(
+      result.recovered.some((r) => r.includes("M001") && r.includes("branch already deleted")),
+      `should report branch-less orphan cleanup; got: ${JSON.stringify(result.recovered)}`,
+    );
+    assert.ok(!existsSync(wtDir), "branch-less orphan worktree dir should be removed");
+  });
+
+  test("#5879 — branch list failure still cleans complete orphan only after branch absence is verified", () => {
+    insertMilestone({ id: "M001", title: "Test", status: "complete" });
+
+    const wtDir = join(dir, ".gsd", "worktrees", "M001");
+    mkdirSync(wtDir, { recursive: true });
+    writeFileSync(join(wtDir, "leftover.txt"), "stranded from a prior session\n");
+
+    const result = auditOrphanedMilestoneBranches(dir, "worktree", {
+      branchList: () => {
+        throw new Error("branch list failed");
+      },
+      branchExists: (_basePath, branch) => {
+        assert.equal(branch, "milestone/M001");
+        return false;
+      },
+    });
+
+    assert.ok(
+      result.recovered.some((r) => r.includes("M001") && r.includes("branch already deleted")),
+      `should report verified branch-less orphan cleanup; got: ${JSON.stringify(result.recovered)}`,
+    );
+    assert.ok(!existsSync(wtDir), "verified branch-less orphan worktree dir should be removed");
+  });
+
+  test("#5879 — branch list failure preserves complete worktree when branch still exists", () => {
+    insertMilestone({ id: "M001", title: "Test", status: "complete" });
+
+    const wtDir = join(dir, ".gsd", "worktrees", "M001");
+    mkdirSync(wtDir, { recursive: true });
+    writeFileSync(join(wtDir, "live-work.txt"), "do not delete\n");
+
+    const result = auditOrphanedMilestoneBranches(dir, "worktree", {
+      branchList: () => {
+        throw new Error("branch list failed");
+      },
+      branchExists: (_basePath, branch) => {
+        assert.equal(branch, "milestone/M001");
+        return true;
+      },
+    });
+
+    assert.deepStrictEqual(result.recovered, []);
+    assert.ok(existsSync(wtDir), "worktree dir must be preserved when branch existence is verified");
+  });
+
+  test("#5879 — skips branch-less orphan for milestone that is not complete", () => {
+    // Defensive: only `complete` milestones get the branch-less cleanup. An
+    // `active` milestone with no branch but a worktree dir is a different
+    // state (probably mid-recovery) and should not be silently wiped.
+    insertMilestone({ id: "M001", title: "Test", status: "active" });
+
+    const wtDir = join(dir, ".gsd", "worktrees", "M001");
+    mkdirSync(wtDir, { recursive: true });
+    writeFileSync(join(wtDir, "live-work.txt"), "do not delete\n");
+
+    const result = auditOrphanedMilestoneBranches(dir, "worktree");
+
+    assert.deepStrictEqual(result.recovered, []);
+    assert.ok(existsSync(wtDir), "active milestone worktree dir must be preserved");
+  });
+
+  test("#5879 — branch list failure does not delete worktree for milestone that is not complete", () => {
+    insertMilestone({ id: "M001", title: "Test", status: "active" });
+
+    const wtDir = join(dir, ".gsd", "worktrees", "M001");
+    mkdirSync(wtDir, { recursive: true });
+    writeFileSync(join(wtDir, "live-work.txt"), "do not delete\n");
+
+    const result = auditOrphanedMilestoneBranches(dir, "worktree", {
+      branchList: () => {
+        throw new Error("branch list failed");
+      },
+      branchExists: () => {
+        throw new Error("branchExists should not be called for active milestones");
+      },
+    });
+
+    assert.deepStrictEqual(result.recovered, []);
+    assert.ok(existsSync(wtDir), "active milestone worktree dir must be preserved");
+  });
+
+  test("#5879 — skips branch-less orphan in 'none' isolation mode", () => {
+    insertMilestone({ id: "M001", title: "Test", status: "complete" });
+
+    const wtDir = join(dir, ".gsd", "worktrees", "M001");
+    mkdirSync(wtDir, { recursive: true });
+    writeFileSync(join(wtDir, "leftover.txt"), "stranded\n");
+
+    const result = auditOrphanedMilestoneBranches(dir, "none");
+
+    assert.deepStrictEqual(result.recovered, []);
+    assert.ok(existsSync(wtDir), "'none' mode must not touch worktree dirs");
+  });
 });