i have the same problem, that i had send 1 or 100 cent to cryptsy, its show up after a few min, but sent 10000 or 900,000,000 cent to cryptsy, there did not show up.
besides that, why there is shown different cents number when i use different wallet client(10.0 and 10.2), but same wallent.dat?
Seems no problem if you send CENTs from old transaction (before 8 Jan). But if you send new generated trans. (after 8 Jan) there is a problem. You can check that by choosing inputs before sending Cents to Cryptsy.