I seem to be in a minority of one with this upgrade. I loathe it, and find it horribly confusing. Admittedly, I only use my iPad to test ebooks I've designed, but I had no problem in side-loading them into iBooks through the previous iTunes. With the new iTunes I get lost very easily. If I could go back to the previous iTunes I'd do it in a flash.
Having got that off my chest, could anyone point me to a step by step (preferably in one syllable words) account of how to side load my ePubs into iBooks?
I also have Bluefire reader, but am a long way from attempting to load ebooks into that.