So we should still be using cudaminer if we're mining scrypt it looks like (trying to catch up with all the updates). Should we even be mining scrypt anymore or has everyone moved on to the ccMiner algorithms?

cudaMiner Algorithms: scrypt, scrypt-jane, scrypt-N, keccak, blake (github version only
ccMiner Algorithms: HeavyCoin, MjollnirCoin, Fugue, Groestl, Myriad-Groestl, JackpotCoin, Quark, AnimeCoin, X11/DarkCoin (very soon...)