diff --git a/docs/context.md b/docs/context.md
index 00abf2f00..aa22ef501 100644
--- a/docs/context.md
+++ b/docs/context.md
@@ -321,8 +321,14 @@ above 16 MiB is not copied: the snapshot keeps only its metadata, so a change
 by the removed turns makes the whole restore unavailable and nothing is
 restored; an unchanged one does not get in the way. Old turns without backups,
 overlapping turns in the same workspace, a cut inside a running turn and
-incomplete snapshots cannot restore code. The rewind
-answers `files: { status, count, reason? }`; `status` is `restored`, `unchanged`
+incomplete snapshots cannot restore code. Two folders overlap when one holds
+the other and the outer snapshot would list a file of the inner one: git
+lists a repository or worktree of its own (`.boite/worktrees/*`) as one
+directory entry, unless the outer index tracks its files; a plain walk lists
+all but the skipped folders. An edit made while another turn still works in an
+overlapping folder, such as a sub-agent winding down after a Stop, rewinds the
+messages and leaves every file as it is, with `busy: true`. The rewind
+answers `files: { status, count, reason?, busy? }`; `status` is `restored`, `unchanged`
 or `unavailable`. The client shows a warning for unavailable backups rather
 than claiming that the code was restored.
 
diff --git a/packages/contracts/src/threads.ts b/packages/contracts/src/threads.ts
index 6b2616078..55d77c645 100644
--- a/packages/contracts/src/threads.ts
+++ b/packages/contracts/src/threads.ts
@@ -484,8 +484,12 @@ export interface ThreadRewind {
    * carrying the kept history, as a change of account does.
    */
   session: 'native' | 'seeded';
-  /** File changes restored before the cut. Missing on older cores. */
-  files?: { status: 'restored' | 'unchanged' | 'unavailable'; count: number; reason?: string };
+  /**
+   * File changes restored before the cut. Missing on older cores. `busy`:
+   * another turn was working in the same folder, so the files were left as
+   * they are and only the messages were rewound.
+   */
+  files?: { status: 'restored' | 'unchanged' | 'unavailable'; count: number; reason?: string; busy?: true };
 }
 
 export interface ThreadsRpcMethods {
diff --git a/packages/core/src/threads/checkpoint-files.ts b/packages/core/src/threads/checkpoint-files.ts
index 0bdbaf997..4a8bc27e9 100644
--- a/packages/core/src/threads/checkpoint-files.ts
+++ b/packages/core/src/threads/checkpoint-files.ts
@@ -33,6 +33,28 @@ export function contains(root: string, path: string): boolean {
   return child === '' || (!isAbsolute(child) && child !== '..' && !child.startsWith(`..${sep}`));
 }
 
+/**
+ * Whether turns in these two folders can change the same snapshot file. A
+ * folder inside another shares its files when the outer snapshot would list
+ * one of them: git decides what it lists (a repository or worktree of its own
+ * shows as one directory entry, files the outer index tracks still count), and
+ * a plain walk lists all but the skipped folders.
+ */
+export async function overlap(core: Core, threadId: string, a: string, b: string): Promise<boolean> {
+  if (contains(a, b)) return listsAny(core, threadId, resolve(a), resolve(b));
+  if (contains(b, a)) return listsAny(core, threadId, resolve(b), resolve(a));
+  return false;
+}
+
+async function listsAny(core: Core, threadId: string, root: string, path: string): Promise<boolean> {
+  const inner = relative(root, path);
+  if (!inner) return true;
+  const listed = await git(core, threadId, root, ['ls-files', '-z', '--cached', '--others', '--exclude-standard', '--', inner.split(sep).join('/')], 5000);
+  // Same fallback as `snapshot`: without git, every folder but the skipped ones is walked.
+  if (listed.code !== 0) return !inner.split(sep).some(part => SKIP.has(part));
+  return listed.stdout.split('\0').some(name => name && !name.endsWith('/'));
+}
+
 export function same(a: FileEntry | undefined, b: FileEntry | undefined): boolean {
   return a?.hash === b?.hash && a?.mode === b?.mode && a?.link === b?.link && a?.unbacked === b?.unbacked;
 }
diff --git a/packages/core/src/threads/code-checkpoints.ts b/packages/core/src/threads/code-checkpoints.ts
index d20b5c00c..ba70bf834 100644
--- a/packages/core/src/threads/code-checkpoints.ts
+++ b/packages/core/src/threads/code-checkpoints.ts
@@ -3,7 +3,7 @@ import { basename, dirname, join } from 'node:path';
 import type { ThreadRewind, ThreadSummary } from '@boite/contracts';
 import type { Core } from '../core.ts';
 import { messageOf, refused } from '../errors.ts';
-import { collectSharedBlobs, contains, restoreFiles, same, snapshot, workspaceRoot, type FileChange, type FileSnapshot, type SnapshotCache } from './checkpoint-files.ts';
+import { collectSharedBlobs, contains, overlap, restoreFiles, same, snapshot, workspaceRoot, type FileChange, type FileSnapshot, type SnapshotCache } from './checkpoint-files.ts';
 import { decodeManifest, encodeManifest, StoreMigration, trimFolder } from './checkpoint-store.ts';
 
 type FileResult = NonNullable<ThreadRewind['files']>;
@@ -119,13 +119,13 @@ export class CodeCheckpoints {
     try { root = await workspaceRoot(thread.cwd); } catch { return; }
     const checkpoint: Checkpoint = { root, messages: [...this.core.journal.walkTurnMessages(thread.id, turnId, { blobs: false })].filter(message => message.role === 'user').map(message => message.id) };
     this.assertAvailable(root);
-    for (const other of this.active.values()) {
-      if (contains(root, other.checkpoint.root) || contains(other.checkpoint.root, root)) {
-        checkpoint.reason = other.checkpoint.reason = 'turns ran concurrently in the same workspace';
-      }
-    }
+    // Registered first: a turn that starts while this one compares sees it.
+    const others = [...this.active.values()];
     this.active.set(turnId, { threadId: thread.id, turnId, checkpoint });
     try {
+      for (const other of others) {
+        if (await overlap(this.core, thread.id, root, other.checkpoint.root)) checkpoint.reason = other.checkpoint.reason = 'turns ran concurrently in the same workspace';
+      }
       this.pruned ??= this.prune();
       await this.pruned;
       await this.trims.get(thread.id);
@@ -168,11 +168,18 @@ export class CodeCheckpoints {
     try { root = await workspaceRoot(thread.cwd); }
     catch (error) { return cut({ status: 'unavailable', count: 0, reason: `the working directory is unavailable: ${messageOf(error)}` }); }
     this.assertAvailable(root);
-    if ([...this.active.values()].some(active => contains(root, active.checkpoint.root) || contains(active.checkpoint.root, root))) {
-      throw refused('another turn is working in this project; stop it before restoring files', { field: 'cwd', path: root, reason: 'turn-in-flight' });
-    }
+    // Held before comparing, so no turn starts here while the files are restored.
     this.restoring.add(root);
     try {
+      // A turn still working here (a sub-agent winding down after a Stop, a
+      // second conversation) ran beside the removed ones, so their checkpoint
+      // is not exact, and restoring would write under that agent. The edit
+      // still goes through; only the files stay as they are.
+      for (const active of [...this.active.values()]) {
+        if (await overlap(this.core, thread.id, root, active.checkpoint.root)) {
+          return cut({ status: 'unavailable', count: 0, reason: 'another turn is working in this folder; files were left as they are', busy: true });
+        }
+      }
       const { files, changes } = await this.restore(thread, root, turnIds, messageId);
       try { return cut(files); }
       catch (error) {
diff --git a/packages/core/test/rewind-files.test.ts b/packages/core/test/rewind-files.test.ts
index 463c83b63..f28812af0 100644
--- a/packages/core/test/rewind-files.test.ts
+++ b/packages/core/test/rewind-files.test.ts
@@ -5,7 +5,7 @@ import { afterEach, beforeEach, expect, spyOn, test } from 'bun:test';
 import type { CoreClient } from '../src/client.ts';
 import { setDriver } from '../src/drivers/index.ts';
 import { CodeCheckpoints, IDLE_THREAD_MS, KEEP_TURNS } from '../src/threads/code-checkpoints.ts';
-import { restoreFiles, sharedBlob, snapshot } from '../src/threads/checkpoint-files.ts';
+import { overlap, restoreFiles, sharedBlob, snapshot } from '../src/threads/checkpoint-files.ts';
 import { BLOB_BYTE_LIMIT, decodeBlob, decodeManifest } from '../src/threads/checkpoint-store.ts';
 import { git } from '../src/git/read.ts';
 import { startTestCore, waitFor, type TestCore } from './harness.ts';
@@ -48,6 +48,16 @@ async function run(prompt: string): Promise<string> {
   return h.core.threads.get(threadId).messages.find(message => message.turnId === turn.id && message.role === 'user')!.id;
 }
 
+/** The fixture must not depend on the runner having a configured Git identity. */
+function commitFixture(folder = cwd): void {
+  const committed = Bun.spawnSync({
+    cmd: ['git', 'commit', '--quiet', '-m', 'fixture'], cwd: folder,
+    env: { ...process.env, GIT_AUTHOR_NAME: 'boite test', GIT_AUTHOR_EMAIL: 'test@boite.invalid', GIT_COMMITTER_NAME: 'boite test', GIT_COMMITTER_EMAIL: 'test@boite.invalid' },
+    stdout: 'pipe', stderr: 'pipe', windowsHide: true,
+  });
+  if (!committed.success) throw new Error(committed.stderr.toString());
+}
+
 test('editing restores changed, deleted, created and binary files, then runs the replacement from that state', async () => {
   await writeFile(join(cwd, 'app.ts'), 'initial');
   await writeFile(join(cwd, 'image.bin'), new Uint8Array([0, 255, 2]));
@@ -91,13 +101,7 @@ test('git checkpoints restore the dirty starting state without changing HEAD, th
   await writeFile(join(cwd, '.gitignore'), 'ignored.txt\n');
   await writeFile(join(cwd, 'app.ts'), 'staged');
   expect((await git(h.core, threadId, cwd, ['add', '.'])).code).toBe(0);
-  // The fixture must not depend on the runner having a configured Git identity.
-  const committed = Bun.spawnSync({
-    cmd: ['git', 'commit', '--quiet', '-m', 'fixture'], cwd,
-    env: { ...process.env, GIT_AUTHOR_NAME: 'boite test', GIT_AUTHOR_EMAIL: 'test@boite.invalid', GIT_COMMITTER_NAME: 'boite test', GIT_COMMITTER_EMAIL: 'test@boite.invalid' },
-    stdout: 'pipe', stderr: 'pipe', windowsHide: true,
-  });
-  if (!committed.success) throw new Error(committed.stderr.toString());
+  commitFixture();
   await writeFile(join(cwd, 'app.ts'), 'dirty staged');
   expect((await git(h.core, threadId, cwd, ['add', 'app.ts'])).code).toBe(0);
   await writeFile(join(cwd, 'app.ts'), 'dirty unstaged');
@@ -205,7 +209,7 @@ test('a failure while cutting messages rolls the restored files back', async ()
   expect(h.core.threads.get(threadId).messages.filter(message => message.role === 'user')).toHaveLength(1);
 });
 
-test('overlapping turns cannot restore each other\'s files, and an active workspace refuses a rewind', async () => {
+test('overlapping turns cannot restore each other\'s files, and an edit beside a working turn leaves the files alone', async () => {
   await writeFile(join(cwd, 'app.ts'), 'initial');
   const thread = h.core.threads.require(threadId);
   const other = await client.call('threads.create', { projectId: thread.projectId!, providerId: 'echo', accountId: thread.accountId });
@@ -215,12 +219,16 @@ test('overlapping turns cannot restore each other\'s files, and an active worksp
     if (prompt.includes('held')) { entered = true; await held.promise; }
     else await writeFile(join(cwd, 'app.ts'), 'parallel');
   };
-  const first = await run('initial');
+  await run('initial');
+  const second = await run('second');
   const pending = await client.call('turns.start', { threadId: other.id, prompt: 'held' });
   try {
     await waitFor(() => entered);
-    await expect(client.call('threads.rewind', { threadId, messageId: first })).rejects.toThrow('another turn');
-    expect(h.core.threads.get(threadId).messages.some(message => message.id === first)).toBe(true);
+    // A sub-agent still stopping, or another conversation, works in this folder.
+    const beside = await client.call('threads.rewind', { threadId, messageId: second });
+    expect(beside.files).toMatchObject({ status: 'unavailable', busy: true });
+    expect(h.core.threads.get(threadId).messages.some(message => message.id === second)).toBe(false);
+    expect(await readFile(join(cwd, 'app.ts'), 'utf8')).toBe('parallel');
     const overlap = await run('parallel');
     held.resolve();
     await waitFor(() => h.core.journal.getTurn(pending.id)?.finishedAt != null);
@@ -231,6 +239,42 @@ test('overlapping turns cannot restore each other\'s files, and an active worksp
   } finally { held.resolve(); }
 });
 
+test('a turn in a worktree nested in the project neither blocks nor spoils a rewind of the main checkout', async () => {
+  expect((await git(h.core, threadId, cwd, ['init', '--quiet'])).code).toBe(0);
+  await writeFile(join(cwd, '.gitignore'), '.boite/\n');
+  await writeFile(join(cwd, 'app.ts'), 'initial');
+  expect((await git(h.core, threadId, cwd, ['add', '.'])).code).toBe(0);
+  commitFixture();
+  const nested = join(cwd, '.boite', 'worktrees', 'wt-child');
+  expect((await git(h.core, threadId, cwd, ['worktree', 'add', '--quiet', '-b', 'child', nested])).code).toBe(0);
+  const thread = h.core.threads.require(threadId);
+  const child = await client.call('threads.create', { projectId: thread.projectId!, providerId: 'echo', accountId: thread.accountId });
+  h.core.journal.putThread({ ...h.core.threads.require(child.id), cwd: nested });
+  const held = Promise.withResolvers<void>();
+  let entered = false;
+  change = async prompt => {
+    if (prompt.includes('held')) { entered = true; await held.promise; }
+    else await writeFile(join(cwd, 'app.ts'), prompt);
+  };
+  await run('kept');
+  const pending = await client.call('turns.start', { threadId: child.id, prompt: 'held' });
+  try {
+    await waitFor(() => entered);
+    const edited = await run('removed');
+    const rewound = await client.call('threads.rewind', { threadId, messageId: edited });
+    expect(rewound.files).toEqual({ status: 'restored', count: 1 });
+    expect(await readFile(join(cwd, 'app.ts'), 'utf8')).toBe('kept');
+  } finally { held.resolve(); }
+  await waitFor(() => h.core.journal.getTurn(pending.id)?.finishedAt != null);
+  // A repository of its own whose files the outer index still tracks shares them.
+  await mkdir(join(cwd, 'vendor'));
+  await writeFile(join(cwd, 'vendor', 'lib.ts'), 'tracked');
+  expect((await git(h.core, threadId, cwd, ['add', 'vendor'])).code).toBe(0);
+  expect((await git(h.core, threadId, join(cwd, 'vendor'), ['init', '--quiet'])).code).toBe(0);
+  expect(await overlap(h.core, threadId, cwd, join(cwd, 'vendor'))).toBe(true);
+  expect(await overlap(h.core, threadId, nested, cwd)).toBe(false);
+});
+
 test('permanently removing a project removes its private file checkpoints', async () => {
   const message = await run('save');
   expect(message).toBeTruthy();
diff --git a/packages/ui/src/lib/store-rewind.test.ts b/packages/ui/src/lib/store-rewind.test.ts
index 467326ba0..59b56a470 100644
--- a/packages/ui/src/lib/store-rewind.test.ts
+++ b/packages/ui/src/lib/store-rewind.test.ts
@@ -2,6 +2,7 @@ import { expect, vi } from 'vitest';
 import { test } from '../test/fake-client';
 import { RpcErrorCode } from '@boite/contracts';
 import type { FakeClient } from './fake-client';
+import { strings } from './strings';
 
 /** Two finished turns on the open thread, and the ids of their user messages. */
 async function twoTurns(client: FakeClient, threadId: string): Promise<[string, string]> {
@@ -55,6 +56,20 @@ test('a rewind without file backups visibly explains that the code could not be
   expect(store.error).toContain('code');
 });
 
+test('a rewind beside another working agent says the files were left as they are', async ({ ready }) => {
+  const { store, client } = await ready();
+  const [, edited] = await twoTurns(client, 't-trace');
+  await store.open('t-trace');
+  const call = client.call.bind(client);
+  vi.spyOn(client, 'call').mockImplementation(async (method, params) => {
+    const result = await call(method, params);
+    if (method === 'threads.rewind') return { ...result as object, files: { status: 'unavailable', count: 0, busy: true } } as typeof result;
+    return result;
+  });
+  await store.rewind(edited);
+  expect(store.error).toBe(strings.composer.filesBusy);
+});
+
 test('the fake forks a copy that leaves the source whole', async ({ createClient }) => {
   const client = await createClient({ delayMs: 0 });
   const [kept] = await twoTurns(client, 't-trace');
diff --git a/packages/ui/src/lib/store/threads.svelte.ts b/packages/ui/src/lib/store/threads.svelte.ts
index 1bda2dbed..7963354ce 100644
--- a/packages/ui/src/lib/store/threads.svelte.ts
+++ b/packages/ui/src/lib/store/threads.svelte.ts
@@ -169,7 +169,7 @@ export class Threads {
       const { thread, ...rewound } = await client.call('threads.rewind', { threadId, messageId });
       if (!this.ctx.currentClient(client, clientGeneration)) return null;
       this.applyRewound(thread);
-      if (rewound.files?.status === 'unavailable') this.ctx.store.error = strings.composer.filesUnavailable;
+      if (rewound.files?.status === 'unavailable') this.ctx.store.error = rewound.files.busy ? strings.composer.filesBusy : strings.composer.filesUnavailable;
       return rewound;
     } catch (error) {
       if (this.ctx.currentClient(client, clientGeneration)) this.ctx.fail(error);
diff --git a/packages/ui/src/lib/strings/en/composer.ts b/packages/ui/src/lib/strings/en/composer.ts
index a7fbdae95..fcff6725e 100644
--- a/packages/ui/src/lib/strings/en/composer.ts
+++ b/packages/ui/src/lib/strings/en/composer.ts
@@ -5,6 +5,7 @@ export const strings = {
     editing: 'Editing a sent message: sending replaces it and everything after it',
     editingQueued: 'Send or remove the queued messages before replacing a sent message.',
     filesUnavailable: 'The messages were rewound, but this edit has no complete file backup. The code could not be restored.',
+    filesBusy: 'The messages were rewound. Another agent is still working in this folder, so the files were left as they are.',
     editingCancel: 'Stop editing (Esc)',
     /** A question waits for a written answer: the box writes it, the row above names the question. */
     replying: 'Answering: {question}',
diff --git a/packages/ui/src/lib/strings/fr/composer.ts b/packages/ui/src/lib/strings/fr/composer.ts
index d6402b980..7e4602779 100644
--- a/packages/ui/src/lib/strings/fr/composer.ts
+++ b/packages/ui/src/lib/strings/fr/composer.ts
@@ -6,6 +6,7 @@ export const fr: Translation = {
     editing: 'Modification d’un message envoyé : l’envoi le remplace, avec tout ce qui suit',
     editingQueued: 'Envoyez ou retirez les messages en attente avant de remplacer un message envoyé.',
     filesUnavailable: "Les messages ont été rembobinés, mais cette modification n'a pas de sauvegarde complète des fichiers. Le code n'a pas pu être restauré.",
+    filesBusy: "Les messages ont été rembobinés. Un autre agent travaille encore dans ce dossier, les fichiers sont donc restés tels quels.",
     editingCancel: 'Arrêter la modification (Échap)',
     replying: 'Réponse à : {question}',
     replyPlaceholder: 'Écrivez votre réponse',