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OK, the first thing to check on is where Calibre THINKS the books are... open Calibre and click Preferences. The first item in the first tab is "Location of Ebooks". On mine, it's
C:\Documents and Settings\mcox\My Documents\books
Then see if you can find that folder, OR try searching on some relevant part of the path. ( For this, I would try searching 'books' )
Check your trash.
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