Soon after the Second World War broke out, the airfield became home to No. 4 Service Flying Training School (SFTS), one of dozens of military air training facilities created under the BCATP. This station flew Avro Anson and Cessna Crane twin-engine trainers until 1944, when 4 SFTS was disbanded. One of the many pilots to be trained at the airfield was Les Munro, later to fly on the famous Dambusters Raid.
Postwar, the RCAF returned to the city when No. 406 (Auxiliary) Squadron was set up at the Saskatoon station, initially flying Harvard trainers, and then De Havilland Mosquito light bombers. The squadron changed to light transport/utility duties with the De Havilland Dove and the De Havilland Canada Otter. Another RCAF presence at Saskatoon was No. 1 Advanced Flying School, which used a wide array of aircraft from 1952-62. From 1959-62, the RCAF's Central Flying School was located at the station.