The Air National Guard jet was carrying a "standard armament" package, Col. Thomas McNamara, vice commander of the Air Force Reserve's 452nd Air Mobility Wing at March Air Reserve Base, said at a news conference.
"The pilot did eject and the pilot is ok", he said via phone. The pilot of the F-16 jet was able to eject safely before the plane struck a commercial warehouse located close to the airbase's runway.
"It just shook the whole building", employee Baldur Castro told CBS, adding that one worker had been knocked to the ground.
The base's fire department responded to the crash along with the Riverside police and Riverside County Sheriff's Department.
The extent of the injuries was unclear and the pilot was reportedly "transported to a local hospital for evaluation", officials with the United States Air Force Reserve said in a release late Thursday. There were no major injuries.
The impact sparked a fire but it "wasn't very big", according to March Air Reserve Base Deputy Fire Chief Timothy Holliday.
Live video from a news helicopter showed that the plane appeared to have crashed upon landing. "He started losing control of the aircraft".
A large area around the warehouse was evacuated and nearby Interstate 215, which runs between the base and warehouse, was shut down until crews could render the jet's weaponry and ordnance safe.
The crash had ignited a fire but was quickly extinguished by the building's sprinkler system.
The jet's canopy can be seen on the runway.
The F-16 belonged to the 114th Fighter Wing, based out of Sioux Galls, South Dakota, Air Force Reserve officials said in a written statement.