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Are you seeing this consistently? Can you produce a reproducible example? Ruff doesn't have much control over this -- Ruff just formats the files that are passed to it by pre-commit.
Please provide a minimal reproducible example. You may also need to report this upstream i.e. at pre-commit. As Charlie mentioned, there's not much complexity in Ruff's handling here.
I have run into an issue while attempting to commit changes to my code, where ruff will run on untracked files despite them not being staged.
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