Bitcoin transactions are irreversible, so there is no way to get back stolen coins. And there is insufficient consensus to block them from being spent in future. These, combined with the magical pure-virtual, ethereal nature of Bitcoin, makes it an unprecedented target for thieves.
Maybe Bitcoin can yet be extricated from these issues, but the basic system Nakamoto gave us does not address the needs we so clearly have. Given the track record of so many exchanges and other services, we have a long, long way to go.