[BUG]

Preflight Checklist

• [x] I have searched existing issues and this hasn't been reported yet
• [x] This is a single bug report (please file separate reports for different bugs)
• [x] I am using the latest version of Claude Code

What's Wrong?

Starting with version 2.1.121, every file-edit tool call (Edit / Write / NotebookEdit) shows a permission prompt, even though:

The corresponding tools are explicitly listed in permissions.allow ("Edit", "Write", "NotebookEdit")
The session is switched to Accept Edits or Auto mode via Shift+Tab
The prompt that appears is the standard one:

Do you want to make this edit to <filename>?
❯ 1. Yes

1. Yes, allow all edits during this session (shift+tab)
2. No

Downgrading to 2.1.120 with the identical settings.json restores expected behavior, so this is a regression introduced in 2.1.121.

Environment: macOS 26.4.1（25E253)

What Should Happen?

With "Edit", "Write", and "NotebookEdit" listed in permissions.allow, file-edit operations should proceed without a confirmation prompt (the behavior up through 2.1.120).

Additionally, switching to Accept Edits or Auto mode via Shift+Tab should suppress permission prompts for edit-class tools regardless of the static allow list.

Error Messages/Logs

Steps to Reproduce

1. Install Claude Code 2.1.121 (latest channel).
2. In ~/.claude/settings.json, set:

{
"permissions": {
"allow": ["Edit", "Write", "NotebookEdit"],
"defaultMode": "default"
}
}

1. Launch Claude Code in any directory and have the assistant edit a file.

→ Observed: the permission prompt appears every time.

1. Press Shift+Tab to switch to Accept Edits (or Auto) mode, then trigger another edit.

→ Observed: the prompt still appears.

1. Exit and run the previous binary directly

With the same settings.json, repeat steps 3–4.
→ Observed: no prompts appear (expected behavior).

Claude Model

None

Is this a regression?

Yes, this worked in a previous version

Last Working Version

_No response_

Claude Code Version

2.1.121

Platform

Anthropic API

Operating System

macOS

Terminal/Shell

Terminal.app (macOS)

Additional Information

_No response_