diff --git a/.changeset/fix-prompt-no-tty.md b/.changeset/fix-prompt-no-tty.md
new file mode 100644
index 0000000000..55acb97681
--- /dev/null
+++ b/.changeset/fix-prompt-no-tty.md
@@ -0,0 +1,14 @@
+---
+"@pnpm/plugin-commands-script-runners": patch
+"pnpm": patch
+---
+
+Handle non-TTY environments correctly when using `verifyDepsBeforeRun: prompt`.
+
+Previously, in non-interactive environments like CI, using `verifyDepsBeforeRun: prompt` would silently exit with code 0 even when node_modules were out of sync. This could cause tests to pass even when they should fail.
+
+Now, pnpm will throw an error in non-TTY environments, alerting users that they need to run `pnpm install` first.
+
+Also handles Ctrl+C gracefully during the prompt - exits cleanly without showing a stack trace.
+
+Fixes #10889, #10888
diff --git a/exec/plugin-commands-script-runners/src/runDepsStatusCheck.ts b/exec/plugin-commands-script-runners/src/runDepsStatusCheck.ts
index 243f379f0b..68a3721676 100644
--- a/exec/plugin-commands-script-runners/src/runDepsStatusCheck.ts
+++ b/exec/plugin-commands-script-runners/src/runDepsStatusCheck.ts
@@ -27,14 +27,28 @@ export async function runDepsStatusCheck (opts: RunDepsStatusCheckOptions): Prom
     install()
     break
   case 'prompt': {
-    const confirmed = await enquirer.prompt<{ runInstall: boolean }>({
-      type: 'confirm',
-      name: 'runInstall',
-      message: `Your "node_modules" directory is out of sync with the "pnpm-lock.yaml" file. This can lead to issues during scripts execution.
+    // In non-TTY environments (like CI), we can't prompt the user
+    // Exit with error to alert users that node_modules are out of sync
+    if (!process.stdin.isTTY) {
+      throw new PnpmError('VERIFY_DEPS_BEFORE_RUN', issue ?? 'Your node_modules are out of sync with your lockfile', {
+        hint: 'Run "pnpm install" before running scripts. The "verifyDepsBeforeRun: prompt" setting cannot prompt for confirmation in non-interactive environments.',
+      })
+    }
+    let confirmed: { runInstall: boolean }
+    try {
+      confirmed = await enquirer.prompt<{ runInstall: boolean }>({
+        type: 'confirm',
+        name: 'runInstall',
+        message: `Your "node_modules" directory is out of sync with the "pnpm-lock.yaml" file. This can lead to issues during scripts execution.
 
 Would you like to run "pnpm ${command.join(' ')}" to update your "node_modules"?`,
-      initial: true,
-    })
+        initial: true,
+      })
+    } catch {
+      // User cancelled the prompt (e.g. Ctrl+C) — exit immediately
+      // so the caller doesn't proceed to run the script.
+      process.exit(1)
+    }
     if (confirmed.runInstall) {
       install()
     }
diff --git a/exec/plugin-commands-script-runners/test/verifyDepsBeforeRun.ts b/exec/plugin-commands-script-runners/test/verifyDepsBeforeRun.ts
index 014f3b9247..1b3e153e7a 100644
--- a/exec/plugin-commands-script-runners/test/verifyDepsBeforeRun.ts
+++ b/exec/plugin-commands-script-runners/test/verifyDepsBeforeRun.ts
@@ -88,7 +88,14 @@ test('prompt the user if verifyDepsBeforeRun is set to prompt', async () => {
   // Mock the user confirming the prompt
   jest.mocked(enquirer.prompt).mockResolvedValue({ runInstall: true })
 
-  await runTest('prompt')
+  const originalIsTTY = process.stdin.isTTY
+  Object.defineProperty(process.stdin, 'isTTY', { value: true, configurable: true })
+
+  try {
+    await runTest('prompt')
+  } finally {
+    Object.defineProperty(process.stdin, 'isTTY', { value: originalIsTTY, configurable: true })
+  }
 
   expect(enquirer.prompt).toHaveBeenCalledWith({
     type: 'confirm',
@@ -101,3 +108,24 @@ test('prompt the user if verifyDepsBeforeRun is set to prompt', async () => {
 
   expect(fs.existsSync(path.resolve('node_modules'))).toBeTruthy()
 })
+
+test('throw an error if verifyDepsBeforeRun is set to prompt in non-TTY environment', async () => {
+  prepare(rootProjectManifest)
+
+  // Mock non-TTY environment
+  const originalIsTTY = process.stdin.isTTY
+  Object.defineProperty(process.stdin, 'isTTY', { value: false, configurable: true })
+
+  let err!: Error
+  try {
+    await runTest('prompt')
+  } catch (_err) {
+    err = _err as Error
+  } finally {
+    // Restore original value
+    Object.defineProperty(process.stdin, 'isTTY', { value: originalIsTTY, configurable: true })
+  }
+
+  expect(err.message).toContain('Cannot check whether dependencies are outdated')
+  expect(fs.existsSync(path.resolve('node_modules'))).toBeFalsy()
+})