After downloading Mavericks I've lost all of my PDF documents.

I have an iMac which now running Mavericks and an orginal iPad that I use for work with dozens of PDF documents on it that I use constantly.  Now the iBooks icon that was once part of iTunes and worked great for me that way is sitting down in the task bar and there isn't a thing in it.  I'm sort of freaked out about this because I've really become so used to using iBooks for my PDF reader.
Maybe I need a different PDF reader?
Any suggestions would be appreciated.

Hi
I'm having same issu over here.
Her is my setup
iMac 27" 2014 running Mavericks latest version.
iPad Mini running iOS 8.0.0
MacBook Air 2013 running latest version of Yosemite Public Beta
iPhone 4 running OS 7.1.2
Everything was working like a charm using iCloud Drive and all my Keynote, Pages and Numbers files stored on iCloud.
I could sync with the iMac due to the fact that I'm still on Mavericks, but that didn't bother me. And I don't use Keynote, Pages or Numbers
on my iPhone 4.
I just got an iPhone 6 Gold 64 Go and this is where it all went wrong.
After installation and update to 8.0.2 and setup of my new iPhone, I launched
keynote to see if I could access the presentations I had been working on.
And oh! Horror!!! A popup saying presenting have been deleted from another device....
So I hop back over to my iPad Mini where I had been working on an important presentation... Gone!!
All my presentations... Gone! More that 30 of them... Vanished.
But no problems with Pages or Numbers.... Weird....
Please Please Please help Apple.... I need these files and was solely relying on icloud for backing up my work. That was probably a bad bad move.
Thanks for helping. I see I'm not alone....
Leigh (Paris France)

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