As in basketball, wartime football seasons were shortened. During the 1943 season, the Beavers took on Dickinson State (its only in-state competitor) and Concordia College of Moorhead. They ended the season with a record of 1-2.
The 1944 season saw Valley City Teachers College enter the fray; all three North Dakota teams ended the season tied for the state conference title, with a record of 1-1. MSTC also established a record for the most lettermen in football with 19 players and three managers earning the title. Four of the 12 state “All Conference Players” were Beavers and all 12 were V-12 Sailors.
In 1945, as the V-12 program was ending, the team took the moniker “Bluejackets.” The team ended the season undefeated with a record of 2-0, beating both Dickinson and South Dakota State.