The Estonian football championship was held for the 23rd time in 1946 as the highest Estonian football division for men. The season began on May 19, 1946 and ended on October 6, 1946. In the 1946 season, 6 clubs competed against each other in a total of 30 games. Each team played once at home and away against every other team. The 2-point rule applied . In the event of a tie, the direct comparison counted. The Baltic Fleet soccer team won the championship.