diff --git a/AGENTS.md b/AGENTS.md
index c5a60f9ef..22d012ed5 100644
--- a/AGENTS.md
+++ b/AGENTS.md
@@ -32,7 +32,7 @@ git-ignored `.env.local` without overwriting an existing target, then uses that
 worktree's Hermit proxy to run `bin/pnpm install --frozen-lockfile`. Do not copy
 other ignored paths: Keychain credentials and pnpm's package cache are
 machine-shared, while dependencies and build output are regenerated. Follow the
-per-worktree hook setup in `docs/contributing.md` before committing or pushing.
+once-per-clone hook setup in `docs/contributing.md` before committing or pushing.
 
 ## Engineering standard
 
@@ -203,7 +203,7 @@ confirmation, not app runs.
 ## Before pushing
 
 - Use the agreed feature worktree and pinned `bin/` tools. Follow
-  [hook setup](docs/contributing.md#pre-commit-checks) once per worktree;
+  [hook setup](docs/contributing.md#pre-commit-checks) once per clone;
   preserve custom hooks and never bypass failures.
 - Refresh remote refs; confirm destination, base, and head. Review `git status`,
   the full PR diff, and `git diff --check` against the base. Include only intended
diff --git a/README.md b/README.md
index f396a4bb8..2e2ddf69a 100644
--- a/README.md
+++ b/README.md
@@ -44,8 +44,8 @@ Without live opt-in they run the shell without relay identity access.
 `just iterate` applies formatting and runs fast checks plus the frontend build.
 `just scan` adds tests and native checks. [PR CI](.github/workflows/ci.yml) runs
 those checks in cached, parallel jobs with sharded browser journeys.
-Install the fast staged-file pre-commit and related-test pre-push hooks once per worktree with
-`bin/pnpm hooks:install`; see [hook behavior and partial staging](docs/contributing.md#git-hooks).
+Install the fast staged-file pre-commit and related-test pre-push hooks once per clone with
+`just hooks`; they apply to every worktree without its own `core.hooksPath`; see [hook behavior and partial staging](docs/contributing.md#git-hooks).
 
 ### Design system
 
diff --git a/docs/contributing.md b/docs/contributing.md
index 5443c7636..494d9ff8f 100644
--- a/docs/contributing.md
+++ b/docs/contributing.md
@@ -264,16 +264,23 @@ into an ever-growing full test suite.
 
 ### Pre-commit checks
 
-Install once **per worktree** after `pnpm install --frozen-lockfile`:
+Install once **per clone**; it applies to every existing and future worktree:
 
 ```sh
-bin/pnpm hooks:install
+just hooks
 ```
 
-The installer enables pre-commit and pre-push using Git's worktree-local
-`core.hooksPath`, leaves sibling worktrees
-alone, and refuses existing custom hooks rather than overwriting them. Repeat
-installation is safe. Do not run `lefthook install`: the tracked Git hook calls a
+`just hooks` runs `pnpm hooks:install`, which sets the clone's
+`core.hooksPath` to the relative `.githooks`. Git resolves that from each
+worktree's root, so every worktree runs its own branch's tracked hooks. A
+worktree with its own explicit `core.hooksPath` keeps it and is not changed. The
+installer refuses an existing different clone-local or worktree `core.hooksPath`
+or custom hooks rather than overwriting them; a global `core.hooksPath` is
+overridden for this clone, so global hooks do not run here. The installer checks
+saved clone and worktree settings, including files they include; per-command
+overrides such as `git -c core.hooksPath=...` or `GIT_CONFIG_*` environment
+variables can still take precedence. Repeat installation is safe, including in
+clones with the earlier per-worktree setting. Do not run `lefthook install`: the tracked Git hook calls a
 custom `check-staged` group to avoid Lefthook's automatic partial-file stashing.
 
 Pre-commit runs pinned Biome formatting and safe lint fixes on fully staged
diff --git a/justfile b/justfile
index ef11165a2..f6bf30780 100644
--- a/justfile
+++ b/justfile
@@ -8,6 +8,10 @@ default:
 install:
     pnpm install --frozen-lockfile
 
+# Install Git hooks once for every worktree of this clone.
+hooks: install
+    pnpm hooks:install
+
 # Run the shared frontend in a browser; forward Vite arguments (e.g. --port 1431).
 [positional-arguments]
 web *args: install
diff --git a/scripts/install-hooks.mjs b/scripts/install-hooks.mjs
index 8ea732a36..b30de215b 100644
--- a/scripts/install-hooks.mjs
+++ b/scripts/install-hooks.mjs
@@ -1,10 +1,10 @@
 import { execFileSync, spawnSync } from "node:child_process";
 import { existsSync, readdirSync } from "node:fs";
-import { resolve } from "node:path";
+import { join, resolve } from "node:path";
 
 const git = (...args) => execFileSync("git", args, { encoding: "utf8" }).trim();
-const config = (key) => {
-  const result = spawnSync("git", ["config", "--get", key], {
+const config = (key, ...scope) => {
+  const result = spawnSync("git", ["config", ...scope, "--get", key], {
     encoding: "utf8",
   });
   if (result.status === 1) return "";
@@ -13,13 +13,27 @@ const config = (key) => {
   return result.stdout.trim();
 };
 process.chdir(git("rev-parse", "--show-toplevel"));
-const existing = config("core.hooksPath");
-if (existing && existing !== ".githooks")
-  throw new Error(
-    `Existing core.hooksPath (${existing}); reconcile it before installing.`,
-  );
-if (!existing) {
-  const hooks = git("rev-parse", "--git-path", "hooks");
+// Refuse different hooks paths in this clone or its worktree config. Global and
+// system settings are intentionally ignored because this install replaces them.
+const shared = config("core.hooksPath", "--local", "--includes");
+const worktreeConfig =
+  config(
+    "extensions.worktreeConfig",
+    "--local",
+    "--includes",
+    "--type=bool",
+  ) === "true";
+const worktree = worktreeConfig
+  ? config("core.hooksPath", "--worktree", "--includes")
+  : "";
+for (const value of [shared, worktree])
+  if (value && value !== ".githooks")
+    throw new Error(
+      `Existing core.hooksPath (${value}); reconcile it before installing.`,
+    );
+if (!shared) {
+  // The clone's default hooks directory, whatever this worktree overrides.
+  const hooks = join(resolve(git("rev-parse", "--git-common-dir")), "hooks");
   const custom = existsSync(hooks)
     ? readdirSync(hooks).filter((name) => !name.endsWith(".sample"))
     : [];
@@ -28,15 +42,16 @@ if (!existing) {
       `Existing hooks (${custom.join(", ")}); reconcile them before installing.`,
     );
 }
-// Worktree-specific hooks must not replace a sibling checkout's workflow.
 // Git requires special migration for explicit core.worktree/bare repositories.
 if (config("core.worktree") || config("core.bare") === "true")
   throw new Error(
     "Nonstandard worktree configuration; install hooks manually.",
   );
 execFileSync(resolve("bin/lefthook"), ["validate"], { stdio: "inherit" });
-git("config", "--local", "extensions.worktreeConfig", "true");
-git("config", "--worktree", "core.hooksPath", ".githooks");
+// One clone-wide setting covers every worktree: Git resolves the relative path
+// from each worktree's root, so each runs its own branch's tracked .githooks.
+// Explicit per-worktree settings, including earlier installs, stay in place.
+git("config", "--local", "core.hooksPath", ".githooks");
 console.log(
-  "Installed Lefthook pre-commit and pre-push for this worktree only.",
+  "Installed Lefthook pre-commit and pre-push for every worktree of this clone.",
 );
diff --git a/tests/integration/hooks.test.mjs b/tests/integration/hooks.test.mjs
index a857d6219..a53aa24bc 100644
--- a/tests/integration/hooks.test.mjs
+++ b/tests/integration/hooks.test.mjs
@@ -81,14 +81,26 @@ function fixture(t) {
   git("commit", "-qm", "hook configuration");
   const sibling = path.join(dir, "sibling");
   git("worktree", "add", "--detach", sibling);
-  const install = () =>
-    run(path.join(root, "bin/node"), ["scripts/install-hooks.mjs"]);
+  const install = (overrides = {}) =>
+    run(path.join(root, "bin/node"), ["scripts/install-hooks.mjs"], overrides);
   const installed = install();
   assert.equal(installed.status, 0, installed.stdout + installed.stderr);
   const commit = () => run("git", ["commit", "-qm", "probe"]);
   return { dir, sibling, run, git, write, read, install, commit };
 }
 
+function assertIncludedHooksPathRefused(f, files, expectedPath) {
+  const before = files.map((file) => [file, f.read(file)]);
+  const refused = f.install();
+  assert.notEqual(refused.status, 0);
+  assert.match(refused.stderr, /Existing core.hooksPath/);
+  for (const [file, content] of before)
+    assert.equal(f.read(file), content, `${file} changed after refusal`);
+  const effective = f.run("git", ["config", "--get", "core.hooksPath"]);
+  assert.equal(effective.status, 0, effective.stdout + effective.stderr);
+  assert.equal(effective.stdout.trim(), expectedPath);
+}
+
 test("both pre-push jobs receive the complete Git input without sharing a read cursor", (t) => {
   const f = fixture(t);
   // Keep the installed hook and production job configuration. Probe only the
@@ -216,32 +228,52 @@ test("staged deletions and documentation-only commits do not rewrite source", (t
   assert.equal(f.read("untouched.ts"), "export const unrelated={value:1}\n");
 });
 
-test("installation is worktree-local, repeatable, and refuses custom hooks", (t) => {
+test("installation covers every worktree, is repeatable, and refuses custom hooks", (t) => {
   const f = fixture(t);
   assert.equal(
-    f.git("config", "--worktree", "--get", "core.hooksPath").trim(),
+    f.git("config", "--local", "--get", "core.hooksPath").trim(),
     ".githooks",
   );
+  // A linked worktree runs its own checkout's hooks, not the main checkout's.
+  const hook = path.join(f.sibling, ".githooks/pre-commit");
+  writeFileSync(hook, '#!/bin/sh\npwd > "$(git rev-parse --git-dir)/ran"\n');
+  const sibling = (...args) =>
+    spawnSync("git", args, { cwd: f.sibling, env, encoding: "utf8" });
   assert.equal(
-    f.run("git", ["config", "--local", "--get", "core.hooksPath"]).status,
-    1,
+    sibling("commit", "-q", "--allow-empty", "-m", "probe").status,
+    0,
+  );
+  const gitDir = sibling("rev-parse", "--absolute-git-dir").stdout.trim();
+  assert.equal(
+    readFileSync(path.join(gitDir, "ran"), "utf8").trim(),
+    sibling("rev-parse", "--show-toplevel").stdout.trim(),
   );
   assert.equal(f.install().status, 0);
 
-  const result = spawnSync("git", ["config", "--get", "core.hooksPath"], {
-    cwd: f.sibling,
-    env,
-    encoding: "utf8",
-  });
-  assert.equal(result.status, 1);
+  // A clone set up per worktree by the earlier installer reinstalls cleanly
+  // and keeps its existing worktree setting.
+  f.git("config", "--local", "--unset", "core.hooksPath");
+  f.git("config", "--local", "extensions.worktreeConfig", "true");
+  f.git("config", "--worktree", "core.hooksPath", ".githooks");
+  assert.equal(f.install().status, 0);
+  assert.equal(
+    f.git("config", "--local", "--get", "core.hooksPath").trim(),
+    ".githooks",
+  );
+  assert.equal(
+    f.git("config", "--worktree", "--get", "core.hooksPath").trim(),
+    ".githooks",
+  );
+
   f.git("config", "--worktree", "--unset", "core.hooksPath");
+  f.git("config", "--local", "--unset", "core.hooksPath");
   f.write(".git/hooks/pre-commit", "#!/bin/sh\nexit 1\n");
   const before = f.read(".git/hooks/pre-commit");
   const refused = f.install();
   assert.notEqual(refused.status, 0);
   assert.match(refused.stderr, /Existing hooks/);
   assert.equal(f.read(".git/hooks/pre-commit"), before);
-  f.git("config", "--worktree", "core.hooksPath", "custom-hooks");
+  f.git("config", "--local", "core.hooksPath", "custom-hooks");
   assert.notEqual(f.install().status, 0);
   assert.equal(
     f.git("config", "--get", "core.hooksPath").trim(),
@@ -249,6 +281,108 @@ test("installation is worktree-local, repeatable, and refuses custom hooks", (t)
   );
 });
 
+test("an old worktree override does not mask shared hooks the install would replace", (t) => {
+  const f = fixture(t);
+  const masked = () => {
+    f.git("config", "--local", "extensions.worktreeConfig", "true");
+    f.git("config", "--worktree", "core.hooksPath", ".githooks");
+  };
+  // A different clone-wide path that siblings rely on.
+  f.git("config", "--local", "core.hooksPath", "custom-hooks");
+  masked();
+  const refusedPath = f.install();
+  assert.notEqual(refusedPath.status, 0);
+  assert.match(refusedPath.stderr, /Existing core.hooksPath \(custom-hooks\)/);
+  assert.equal(
+    f.git("config", "--local", "--get", "core.hooksPath").trim(),
+    "custom-hooks",
+  );
+  // Custom default hooks that a clone-wide path would stop running.
+  f.git("config", "--local", "--unset", "core.hooksPath");
+  f.write(".git/hooks/pre-commit", "#!/bin/sh\nexit 1\n");
+  const refusedHooks = f.install();
+  assert.notEqual(refusedHooks.status, 0);
+  assert.match(refusedHooks.stderr, /Existing hooks \(pre-commit\)/);
+  assert.equal(
+    f.run("git", ["config", "--local", "--get", "core.hooksPath"]).status,
+    1,
+  );
+  assert.equal(f.read(".git/hooks/pre-commit"), "#!/bin/sh\nexit 1\n");
+});
+
+test("a global hooks path is overridden for this clone", (t) => {
+  const f = fixture(t);
+  const globalConfig = path.join(f.dir, "global.gitconfig");
+  f.git("config", "--local", "--unset", "core.hooksPath");
+  f.git("config", "--file", globalConfig, "core.hooksPath", "global-hooks");
+  const installed = f.install({ GIT_CONFIG_GLOBAL: globalConfig });
+  assert.equal(installed.status, 0, installed.stdout + installed.stderr);
+  const effective = f.run("git", ["config", "--get", "core.hooksPath"], {
+    GIT_CONFIG_GLOBAL: globalConfig,
+  });
+  assert.equal(effective.status, 0, effective.stdout + effective.stderr);
+  assert.equal(effective.stdout.trim(), ".githooks");
+});
+
+test("a conflicting clone hooks path is refused", (t) => {
+  const f = fixture(t);
+  f.git("config", "--local", "core.hooksPath", "custom-hooks");
+  const refused = f.install();
+  assert.notEqual(refused.status, 0);
+  assert.match(refused.stderr, /Existing core.hooksPath \(custom-hooks\)/);
+  assert.equal(
+    f.git("config", "--local", "--get", "core.hooksPath").trim(),
+    "custom-hooks",
+  );
+});
+
+test("a clone include before core is refused", (t) => {
+  const f = fixture(t);
+  f.git("config", "--local", "--unset", "core.hooksPath");
+  f.write(".git/included-before.conf", "[core]\n\thooksPath = custom-before\n");
+  const config = f.read(".git/config");
+  f.write(".git/config", `[include]\n\tpath = included-before.conf\n${config}`);
+  assertIncludedHooksPathRefused(
+    f,
+    [".git/config", ".git/included-before.conf"],
+    "custom-before",
+  );
+});
+
+test("a clone include after core is refused", (t) => {
+  const f = fixture(t);
+  f.git("config", "--local", "--unset", "core.hooksPath");
+  f.write(".git/included-after.conf", "[core]\n\thooksPath = custom-after\n");
+  const config = f.read(".git/config");
+  f.write(
+    ".git/config",
+    `${config}\n[include]\n\tpath = included-after.conf\n`,
+  );
+  assertIncludedHooksPathRefused(
+    f,
+    [".git/config", ".git/included-after.conf"],
+    "custom-after",
+  );
+});
+
+test("an included worktree hooks path is refused", (t) => {
+  const f = fixture(t);
+  f.git("config", "--local", "extensions.worktreeConfig", "true");
+  f.write(
+    ".git/included-worktree.conf",
+    "[core]\n\thooksPath = custom-worktree\n",
+  );
+  f.write(
+    ".git/config.worktree",
+    "[include]\n\tpath = included-worktree.conf\n",
+  );
+  assertIncludedHooksPathRefused(
+    f,
+    [".git/config.worktree", ".git/included-worktree.conf"],
+    "custom-worktree",
+  );
+});
+
 test("unstaged lint configuration cannot hide a staged warning", (t) => {
   const f = fixture(t);
   const config = JSON.parse(f.read("biome.json"));