Every time the ship goes into Hyper Mode is a moment of awesome really.
The Japanese seemed to like the ship enough to take all those pictures when it came down.
Radar operator: Japanese air force report sightings of the aircraft above Tokyo sir.
Radar operator 2: Japanese air force reports the aircraft has left Japanese airspace.
Dr. Faraday: Where's it going now?
The scene where David enters the NASA hangar and first encounters the alien ship. From the moment he first sees it, to the first time the ship morphs its hatch into the levitating steps is totally awesome.