the same will happen, with cryptsy like it happened with bitstamp, no coins back, they are gone, nada, zero, they are in the hands of thief
can you name me a single complex technology the flew perfect on the first try?
There is a REASON bitcoind is v0.1 at this time.
Running an exchange still has some work to do as well.
When the technology reaches v1.0, you can rest assured. But by then you will have missed the boat and just along for the ride.
but this has more to do with the negligency of the owner, and not the technology, so i'm afraid nothing will change in the future if the people are dumb and don't care about the money of the other
i'm sure that if there were their money there they would have been more diligent and cautious