The mafia connection to the assassination was always the most interesting for me. That whole Oswald/Cuban thing too.
The "magic bullet" theory has been proved and disproved so many times, you don't know which way is up anymore.
Look on the grassy knoll!
Seriously, I love the JFK conspiracy theories so much. It's a very broad and interesting subject to research. I think your paper will be fun to write!
I loved this book:
http://tinyurl.com/cgjgym
This looks interesting too:
http://tinyurl.com/csnpzc
I have some books buried in a box somewhere if you need any
Oh... also check out the Warren Commission report findings and those who contest them and their inaccuracy.
And the inconsistencies in the 2 autopsies.