After World War II was renamed SV Pfullendorf and played eight matches under this name in the 1945–46 season of the amateur Einheitsklasse Bodensee/Schwarzwald league.

The second half of the 90s was difficult for the club as they slipped to the Verbandsliga Südbaden in 1994 and then spent the next three seasons toiling in the Oberliga Baden-Württemberg (IV).

Pfullendorf returned to the Regionalliga Süd for the 1998–99 season where, despite being a tough opponent, they finished in 16th place with a +1 goal differential and appeared headed for relegation.

The following season was even more exciting for supporters as the club began winning the close matches it had dropped the year before and rocketed to a second-place finish.

This earned an appearance in the promotion round for the second division where they drew 1:1 with LR Ahlen and lost 1:3 to Union Berlin.

The SC Pfullendorf II played in the Verbandsliga Südbaden for seven consecutive season, having reached this league level in 1999 for the first time, but suffered relegation to the Landesliga in 2011.

[1] Note: Flags indicate national team as defined under FIFA eligibility rules; some limited exceptions apply.