My wallet (9.4.6) is showing 3 confirmations and Cryptsy shows none.
Would not be unusual for cryptsy to ignore the fork, wait for a big mess, then fix it maybe a week or so from now... They're not pro-active at all.
Did you dump your chain info and re-pull just to be sure? I think there is a newer version 9.4.8... Might be you on bad fork reading bad fork from other people on bad fork...
See post below this one for version.
Mintpal has deposited my coins now. Cryptsy shows no confirmations. Maybe they're on the wrong fork?