Jay Neylon of the National Transportation Safety Board says the Cessna-172R Skyhawk crashed on one of the runways between 2 a.m. and 8:45 a.m. on Tuesday.
Neylon says investigators are reviewing radar and information from air traffic control in an effort to determine exactly when the crash occurred.
Extremely dense fog was reported at the time, and Neylon says representatives from Cessna will examine the wreckage to determine if there was a malfunction with the plane.
The plane was registered to the Windsor Flying Club in Windsor, Ont., and club president David Gillies says the pilot was an experienced and qualified to fly at night.
The name of the pilot is not being released until next of kin are notified.
Neylon said the four-seater plane was built in 1999 and the pilot was the only person on board.
The plane was scheduled to land at Pelee Island Airport on Monday night, but Neylon said it's not known if the plane actually landed there.
Investigators were scouring the crash site on Wednesday, looking for evidence that could include GPS and a cellphone.