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I am confused - adding a book to Calibre does not convert the format - merely stores the format you add. In addition when you add an HTML format file, Calibre has stored it (and all linked files) a a ZIP file for as long as I can remember.
Once you have added the HTML (zip) file it can be converted to the format of your choce. This can be done explicitly after the add, or implicitly as part of the transfer of files to the reader device. It is not (and never has been) done as part of the add process.
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