| 08/31/06 | at | Iowa St | 43-45 3OT |
| 09/09/06 | at | Western Michigan | 10-31 |
| 09/15/06 | hosting | Kansas | 37-31 2OT |
| 09/23/06 | hosting | McNeese St | 41-7 |
| 09/30/06 | at | Pittsburgh | 3-45 |
| 10/07/06 | hosting | Central Michigan | 20-42 |
| 10/14/06 | at | Kent St | 14-40 |
| 10/21/06 | at | Eastern Michigan | 13-17 |
| 10/28/06 | hosting | Akron | 35-20 |
| 11/07/06 | at | Northern Illinois | 17-13 |
| 11/14/06 | hosting | Ball St | 17-20 |
| 11/21/06 | hosting | Bowling Green | 31-21 |