This looks sooooo 1337, finally someone who actually DOES something instead of just saying "we should make a jj2 quake mod".
I'd like to help in some sort of way, however I know nothing about 3D game stuff. Also, it might be a good idea (Like shadow said) to convert the stuff to Enemy territory, which is free and the developers of that game are supporting mods actively. FYI, it runs in the Q3 engine, and as far as I know there are a few sites with info about converting things from one q3 engine game to another one, try google.

Keep up the good work