Quote:
Originally Posted by megosu
...What am I missing ?
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By default, Calibre will rename the files using the title and author's name. This is very often different that the original filename. As a result, when you move the newly renamed files back to your device they don't overwrite the old files and thus the "duplicates".
In the future, if using Calibre to massage the files will be a regular step then you should do it before putting the files on your device.