Synchronizing pdf in iBooks

Hey!
When I want to sync my iPad and add pdf files to it (pdfs saved to music - iTunes - iTunes Media - Books) I either have to sync all and I get everything double (old AND new versions) or I have to choose from the list below. The problem is old and new versions look the same and i don't get any information on the size of the pdf. So I usually have to guess and see if it was right and if not sync again.
I'd like to just be able to see the current version of my pdfs on iTunes but I can't find out how to do so (there are no doubles saved in the Books folder!)... 
Hope you get what I mean ;-)
Thanks!

It sounds like you have been using iCloud. Did you have "sync books" selected?

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