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Hello Piper,
Calibre was specifically designed to ensure that original source files are never modified or deleted as a safe guard. The file that is copied to the Calibre folder structure may in fact be modified at least its title.
Are you using the Add Book Button, or dragging and dropping?
You can add books (one or more) by dragging them on to the Calibre book list. This can be a quick way to achieve what you are looking for, by keeping the windows explorer window you used as a source open, and then deleting the selected files once you are sure that Calibre has copied them over properly.
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