| 4. Round | 15/08/2009 | FC Schaffhausen | - | FC Wil 1900 | 3:2 | ||||
| 5. Round | 22/08/2009 | FC Schaffhausen | - | FC Lugano | 0:5 | ||||
| 6. Round | 30/08/2009 | FC Gossau | - | FC Schaffhausen | 1:1 | ||||
| 7. Round | 12/09/2009 | FC Schaffhausen | - | FC Vaduz | 1:1 | ||||
| 8. Round | 23/09/2009 | FC Thun | - | FC Schaffhausen | 1:0 | ||||
| 9. Round | 26/09/2009 | FC Lausanne-Sport | - | FC Schaffhausen | 1:0 | ||||
| 10. Round | 03/10/2009 | FC Schaffhausen | - | Servette FC | 2:2 | ||||
| 11. Round | 24/10/2009 | FC Wohlen | - | FC Schaffhausen | 2:4 | ||||
| 12. Round | 01/11/2009 | FC Locarno | - | FC Schaffhausen | 2:2 | ||||
| 13. Round | 07/11/2009 | Yverdon Sport FC | - | FC Schaffhausen | 1:1 | ||||
| 14. Round | 29/11/2009 | FC Schaffhausen | - | FC Biel/Bienne | 3:2 | ||||
| 15. Round | 06/12/2009 | FC Stade Nyonnais | - | FC Schaffhausen | 2:3 | ||||
| 17. Round | 22/02/2010 | FC Schaffhausen | - | FC Locarno | 3:1 | ||||
| 18. Round | 28/02/2010 | FC Schaffhausen | - | FC Lausanne-Sport | 1:0 | ||||
| 19. Round | 06/03/2010 | Servette FC | - | FC Schaffhausen | 4:0 | ||||
| 20. Round | 14/03/2010 | FC Lugano | - | FC Schaffhausen | 4:2 |  |
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| 29. Round | 08/05/2010 | FC Schaffhausen | - | SC Kriens | 1:2 | ||||
| 30. Round | 15/05/2010 | FC Schaffhausen | - | FC Stade Nyonnais | 1:3 |
Kosovo