I meant this wiki to be console/handheld titles only but the mods ruled for it to include PC titles as well. (not sure I agree with this decision but.. them's the breaks) In any case, I'm posting this thread to help get this list started, so add any games; PC, console, or otherwise; that allow you to remap the controls yourself.
p.s. It would be great if you can all list which version it is well when adding a game. I started doing this anyway, but it's even more important now that PC games are included.
Some games I'm pretty sure have this but I thought I'd double check: Duke Nukem 3D (PC), Quake 2 and 3 (PC), Mega Man X4-6 (and maybe 1-3 and 7-8 as well), and various fighting games such as every Tekken game.