| 09/02/06 | at | North Carolina St | 10-23 |
| 09/09/06 | hosting | James Madison | 21-10 |
| 09/16/06 | hosting | Mars Hill | 41-0 |
| 09/23/06 | at | Gardner-Webb | 41-6 |
| 09/30/06 | hosting | Elon | 45-21 |
| 10/07/06 | at | Chattanooga | 56-21 |
| 10/14/06 | hosting | Wofford | 14-7 |
| 10/21/06 | at | Georgia Southern | 27-20 |
| 10/28/06 | hosting | Furman | 40-7 |
| 11/04/06 | hosting | The Citadel | 42-13 |
| 11/11/06 | at | Western Carolina | 31-9 |
| 11/25/06 | hosting | Coastal Carolina | 45-28 |
| 12/02/06 | hosting | Montana St | 38-17 |
| 12/09/06 | hosting | Youngstown St | 49-24 |
| 12/15/06 | hosting | Massachusetts | 28-17 |