| 1939 VFA premiership season | |
|---|---|
 Williamstown FC team, premier | |
| Teams | 12 |
| Premiers | Williamstown 3rd premiership |
| Minor premiers | Prahran 2nd minor premiership |
The 1939 Victorian Football Association season was the 61st season of the Australian rules football competition. The premiership was won by the Williamstown Football Club, which came from fourth on the ladder to defeat Prahran by nine points in the Grand Final on 7 October. It was the club's third VFA premiership, and it was a strong revival after having won the wooden spoon in 1938.