Call me crazy, but you might be onto something. Remember that this is the same country who's Naval personnel on nuclear submarines can't tell you whether there's a nuclear reactor on board.

No, they can't tell you if there are nuclear weapons on board. Big difference.

As for the plane in the video, it sure looks like the E-4B. They used to be based at Andrews AFB, Maryland but are now stationed in Nebraska. It wouldn't be unlikely that the planes (formerly known as the National Emergency Airborne Command Post (pronounced "kneecap") would be scrambled following the 9/11 attack on the United States.