This is a product of a number of people employed by various large companies to basically spend the day scouring YouTube for videos that might, possibly, vaguely, sort of, maybe, from a certain point of view, be infringements on one of the company's thousand or so copyrights.
The blame?
1. The people who mark the videos as copyright-infringed don't research enough, don't watch the video through, and probably don't give two ****s about the situation.
2. The companies that employ them are extremely paranoid and send people to YouTube to take down videos out of some retarded fear, and probably made policies that force some of them to take down the wrong videos.
3. YouTube allows third parties to take down videos in the first place. Google could very well man up and say "**** this" and bluff the other companies into backing off. After all, not many people have the balls to sue Google.