| 09/02/06 | at | Kansas St | 23-24 |
| 09/09/06 | hosting | Central Arkansas | 18-3 |
| 09/16/06 | hosting | Eastern Illinois | 44-30 |
| 09/23/06 | at | Murray St | 35-14 |
| 10/07/06 | at | Western Kentucky | 28-27 |
| 10/14/06 | hosting | Southern Illinois | 37-10 |
| 10/21/06 | at | Western Illinois | 27-14 |
| 10/28/06 | hosting | Youngstown St | 13-27 |
| 11/04/06 | hosting | Missouri St | 38-14 |
| 11/11/06 | at | Indiana St | 42-20 |
| 11/18/06 | at | Northern Iowa | 27-38 |
| 11/25/06 | at | Eastern Illinois | 24-13 |
| 12/02/06 | at | Youngstown St | 21-28 |