If I had to rebuild civilization, I'd have to be much more pragmatic. Our first priority would be food, so my first selection would have to be a book about sustainable farming and agriculture. Sorry, I don't know the names of specific titles, but "You Can Farm" by Joel Salatin comes up on Google, and it looks pretty good.
http://www.barnesandnoble.com/w/you-can-farm-joel-f-salatin/1100097577?ean=9780963810922
Once we get the matter of food out the way, we can get to the actual rebuilding of civilization. You can't have a civilization without technology and infrastructure, for which you need math and science.
So, my second selection would be "God Created the Integers" by Stephen Hawking. It is a repository of mathematical concepts from recent times all the way back to Euclid, and it would save us a lot of time and trouble of having to rediscover the everything on our own.
http://www.barnesandnoble.com/w/god-created-the-integers-stephen-hawking/1111303637?ean=9780762430048
My third selection would be "Feynman Lectures on Physics" by Richard Feynman. I wish it were a bit more up to date, but nevertheless it is a fairly comprehensive primer on physics - quite ideal for a civilization seeking to rebuild itself.
http://www.barnesandnoble.com/w/feynman-lectures-on-physics-boxed-set-richard-phillips-feynman/1100923353?ean=9780465023820
If I could choose more than three books I would also add primers on Chemistry, Engineering, and Medicine. But again, I don't know specific titles.