| 17. Round | 22/03/2025 | FC Schaffhausen II | - | FC Wil 1900 II | 1:0 | ||||
| 19. Round | 05/04/2025 | FC Gossau | - | FC Wil 1900 II | 2:1 | ||||
| 21. Round | 16/04/2025 | FC Frauenfeld | - | FC Wil 1900 II | 3:1 | ||||
| 24. Round | 03/05/2025 | FC Wil 1900 II | - | FC Uster | 0:1 | ||||
| 26. Round | 17/05/2025 | KF Dardania St. Gallen | - | FC Wil 1900 II | 4:1 | ||||
| 27. Round | 24/05/2025 | FC Wil 1900 II | - | FC Seefeld Zürich | 1:3 | ||||
| 28. Round | 01/06/2025 | FC Altstätten | - | FC Wil 1900 II | 3:2 | ||||
| 30. Round | 14/06/2025 | FC Widnau | - | FC Wil 1900 II | 0:1 |
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