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As in, no errors, now calibre wants to check if there are extra files? It means there are extra files.
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I put a false record in my calibre library folder to duplicate this error, and I am getting a checkbox that lets you choose "delete marked". See my screenshot.
If you want those books, DON'T do this! Use the File Explorer to cut and paste the listed folder into a new location, then add it through the "Add Books" menu. Otherwise, just check the box and select "delete marked".
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