FC Ingolstadt began in the 2004–05 Bezirksoberliga Oberbayern, finishing seventh in their debut season.

[1] In their second season, they narrowly missed promotion by just one point, securing third place behind FC Forstern and SV Schechen.

[4] In the 2010–11 season, FC Ingolstadt finished top of the league, earning promotion to the Landesliga Süd.

[8] In the 2018–19 season, FC Ingolstadt became champions of the Regionalliga Süd and won the promotion play-offs against Borussia Bocholt, advancing to the 2.

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