I am not entirely anti-AIT. I think the machines can have a place, for those for whom there is some reasonable suspicion of wrong-doing, and following a metal detector. But the way they are implemented poses severe privacy and security problems, as if someone decided you could solve security problems by buying fancy machines (an unfortunately common problem).
The problem is that as long as the federal government sets standards for airport security, this will be a problem. It doesn't matter if it is the TSA or the NTSB making these decisions--- big corporations will pay lobbyists to get the message to them that their machines are better than the old stuff and therefore should be used in this way. It matters even less if the TSA agents are doing the screening or not, except that with them monopolizing that market there are fewer voices against.