The 1945–46 Southern Football League was the sixth and last edition of the regional war-time football league tournament in Scotland. With the war itself at an end, the clubs from the North Eastern League joined the setup, although only Aberdeen (who had won four of the eight half-season North Eastern tournaments) participated in the A Division; the rest of the clubs were placed in the B Division along with some from the Southern region including those who had finished at the foot of the table in its previous season.