Unclear It is not clear whether this stricter check is switched on by default.
What
A skill can include shell commands that run as part of its instructions. When such a command involves git, Claude Code now checks its permission without your always-allow rules for commands and without the skill's own list of allowed tools.
If the command cannot pass that stricter check, you see a message that a file named HEAD or .git in this folder or one above it may not be yours.
Why
This guards against a folder you opened that contains planted git files meant to make git do something harmful. Skills that run git may now ask for permission or fail where they used to run quietly.
Something disagreesSomething we can check disagrees with this entry, or the writer said they could not settle it.
The writer flagged doubt
It is not clear whether this stricter check is switched on by default.