The pilot was killed.
The Harrier is a "jump jet" aircraft, capable of vertical takeoffs and landings that is used by the Marine Corps and the British Military.
The Marine Corps says the aircraft did not land near any homes, and no one on the ground was hurt.
The Harrier was a single seat model based with the Marine Attack Training Squadron 203. It was on the way back from a training mission when it crashed.
The pilot's name was not released pending notification of next of kin.
Investigators are now trying to figure out why the plane went down.
This is the second crash of a Harrier near the base this year. One crashed in February, but the pilot was not hurt in that incident. Another Marine jet of a different type crashed in a San Diego neighborhood last month killing four people on the ground.