| 09/02/06 | at | UCLA | 10-31 |
| 09/09/06 | hosting | Northern Arizona | 45-7 |
| 09/16/06 | at | Utah St | 48-0 |
| 09/23/06 | at | San Diego St | 38-7 |
| 09/30/06 | hosting | Boise St | 3-36 |
| 10/05/06 | hosting | TCU | 20-7 |
| 10/14/06 | at | Wyoming | 15-31 |
| 10/19/06 | at | New Mexico | 31-34 |
| 10/28/06 | hosting | UNLV | 45-23 |
| 11/11/06 | hosting | Colorado St | 35-22 |
| 11/18/06 | at | Air Force | 17-14 |
| 11/25/06 | hosting | Brigham Young | 31-33 |
| 12/23/06 | at | Tulsa | 25-13 |