No, Tor is not compromised. Tor isn't really designed to protect the privacy of Web Sites. Tor is designed to protect the privacy of Web Site users.
If you have a server that is visible to any client on the Tor network then either the server IP itself must be visible to an exit node put up by Law Enforcement or an intermediary node that is directly conspiring with the server has to be visible to law enforcement.
That is just a basic limitation of onion routing. A client can hide because it gets to choose the entry node. A server can't hide because anyone can set up an exit node.
This illustrates one of the big problems with computer security, people want to believe that security claims are true so they tend to be very gullible. They often rely on claims being made about a product by people talking about it on Web sites rather than the people who built it. And note I said 'rely'. Taking note of someone saying 'steer clear, this is why' on a Web site is very different to following the advice of people playing the pied piper.
There are lots of people who are convinced that Bitcoin is anonymous. This despite the fact that every transaction is public and every wallet tracks every one of them. The BitCoin people don't like hearing that their scheme might not be the future of currency or that it really isn't very different from e-Gold or GoldAge or Liberty Reserve which the FBI had no trouble rolling up. Take a look at the comments on my Bitcoin podcast, not a single substantive comment from a BitCoin supporter. Just a regurgitation of the ideology as fact:
I think this is coming close to the endgame for BitCoin. The FBI might be nervous about the influence that the Winkelvoss twins and other rich supporters of BitCoin might be able to buy (but Senators probably don't take bribes/campaign contributions in Bitcoin). So the logical tactic to make them radioactive would be to arrest them too.
Funny how an ideology that holds the government is an oppressive freedom destroying force can be self-fulfilling. But Bitcoin can't possibly survive when LE believes that the vast majority of Bitcoin transactions involve drugs or kiddie porn or gambling. And I see no evidence to the contrary.