| 8/31/2006 | Lock Haven D2 | 0 | @ | Southern Illinois | 49 | ||||
| 9/16/2006 | Southern Illinois | 35 | @ | Indiana | 28 | ||||
| 9/23/2006 | Southern Illinois | 48 | @ | Ark Pine Bluff | 16 | ||||
| 9/30/2006 | Indiana St | 3 | @ | Southern Illinois | 55 | GW | |||
| 10/7/2006 | Western Illinois | 24 | @ | Southern Illinois | 31 | GW | |||
| 10/14/2006 | Southern Illinois | 10 | @ | Illinois St | 37 | GW | |||
| 10/21/2006 | Western Kentucky | 27 | @ | Southern Illinois | 24 | GW | |||
| 10/28/2006 | Southern Illinois | 27 | @ | Missouri State | 17 | GW | |||
| 11/4/2006 | Southern Illinois | 20 | @ | Youngstown St | 31 | GW | |||
| 11/11/2006 | Northern Iowa | 23 | @ | Southern Illinois | 47 | GW | |||
| 11/18/2006 | S Utah | 0 | @ | Southern Illinois | 59 | ||||
| 11/25/2006 | Tennessee-Martin | 30 | @ | Southern Illinois | 36 | 1-AA Playoffs | |||
| 12/2/2006 | Southern Illinois | 3 | @ | Montana | 20 | 1-AA Playoffs |