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You cannot. Importing from a folder will import from sub folders as well. If you really want to do this, open the folder in windows explorer. drag and drop one of the ebook files onto the calibre book list. It will create a new book with that file. Then select the remaining files in the folder and drag and drop them onto the book details panel with the newly created book selected to add them as extra formats to that book.
Or if you dont like using drag and drop, first add the one file as normal and then right click the add books button and choose add files to existing book and select the remaining files.
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