| 09/01/06 | at | Central Washington | 28-14 |
| 09/09/06 | at | Northern Iowa | 35-31 |
| 09/16/06 | hosting | Winona St | 49-2 |
| 09/23/06 | hosting | Western Washington | 26-20 |
| 09/30/06 | at | Augustana SD | 24-21 |
| 10/07/06 | hosting | Minn St-Mankato | 24-3 |
| 10/14/06 | at | Nebraska-Omaha | 20-21 |
| 10/28/06 | hosting | Minnesota-Duluth | 38-14 |
| 11/04/06 | at | St Cloud St | 34-27 |
| 11/11/06 | hosting | South Dakota | 33-26 |
| 11/18/06 | hosting | Winona St | 42-0 |
| 11/25/06 | at | Nebraska-Omaha | 38-35 |
| 12/02/06 | at | Grand Valley St | 20-30 |