I think the problem is the lack of accountability on the govenrment's part. If the leaders of FBI field offices routinely went to jail for raiding data centers unnecessarily (etc.), you can bet that they'd be more careful. But since there is no punishment for ruining someone's life, they are just going to continue to ruin lives. The false negative rate doesn't matter, as long as they occasionally stop a real crime, everyone gets promotions.

(That's my understanding anyway.)

Also, it is unacceptable that nobody will represent this guy in court. As far as I know, the Constitution guarantees a trial and representation at that trial. If he can't get either, then his civil rights are being illegally violated. (Judges may not understand the Internet, but they do understand the Constitution. Well, except for a few people on the SCOTUS that really need to learn how to read...)