[7] Wangaratta FC then joined the Murray Valley Junior Football Association and won the 1898 premiership, before rejoining the O&MFA for the 1899 season.

[12] In 1945 Wangaratta entered a team in the Murray Valley Football League and they became undefeated premiers.

The club had a very lean period between 1997 and 2002, collecting six consecutive wooden spoons and losing 32 consecutive games between 1997 and 1999, but by the mid-2000s were playing finals and later played in six O&MFNL senior football grand finals between 2007 and 2022, winning four.

This included the 2022 grand final, but the club was stripped of its premiership flag for salary cap breaches in the 2022 season, a first in country football.

Below is the Wangaratta FNC Team of the Century, that was announced on Saturday evening, 5 August 2006.