Already in a git worktree

When using CTA, I select the "Initialize new git repo" option but after the npm install it says there is all ready a git worktree and ask me if I want to initialize a new one. What's going on here? Why is it trying to initialize a git repo twice? Warning: "my-project" is already in a git worktree. Would you still like to initialize a new git repository in this directory? (y/N)
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