| 9/3/2009 | Troy 14 @ Bowling Green 31 | |
| 9/12/2009 | Bowling Green 20 @ Missouri 27 | |
| 9/19/2009 | Bowling Green 10 @ Marshall 17 | |
| 9/26/2009 | Boise St 49 @ Bowling Green 14 | |
| 10/3/2009 | Ohio 44 @ Bowling Green 37 | † |
| 10/10/2009 | Bowling Green 36 @ Kent St 35 | † |
| 10/17/2009 | Bowling Green 31 @ Ball State 17 | † |
| 10/24/2009 | Central Michigan 24 @ Bowling Green 10 | † |
| 11/3/2009 | Bowling Green 30 @ Buffalo 29 | † |
| 11/12/2009 | Bowling Green 35 @ Miami-Ohio 14 | † |
| 11/20/2009 | Akron 20 @ Bowling Green 36 | † |
| 11/27/2009 | Toledo 24 @ Bowling Green 38 | † |
| 12/30/2009 | Bowling Green 42 vs Idaho 43 (Humanitarian Bowl) |