Since the patch, bookshelves seem to be screwing up as well. I activated an empty shelf, selected the max amount of books to be placed on it, then hit go. The books came out of my inventory but never appeared on the shelf, It also doesn't give me the prompt to activate the shelf again to get them back. Tried it on a second book shelf and the same thing happened. This is in the Whiterun house btw.

Yep, buggy bookshelves. Experiencing the same issue. My books are now in a chest!

I would love to put my books back in a chest, but I can't get them off the shelf. It seems that they were trying to fix the book duplication glitch and just really screwed it up.

Hmmm, I bet they tried to stop the Oghma Infinuim exploit and stuffed it up good and proper.