| 08/31/06 | at | Western Illinois | 6-31 |
| 09/09/06 | at | Newberry | 7-23 |
| 09/16/06 | hosting | Valparaiso | 35-42 |
| 09/23/06 | hosting | Missouri-Rolla | 37-49 |
| 09/30/06 | at | Drake | 7-33 |
| 10/07/06 | at | Dayton | 22-15 |
| 10/14/06 | hosting | Davidson | 24-27 |
| 10/21/06 | hosting | Jacksonville FL | 24-28 |
| 10/28/06 | at | San Diego | 21-44 |
| 11/04/06 | at | Butler | 14-7 |
| 11/11/06 | hosting | Austin Peay | 21-23 |