| 9/3/2016 | Southern Miss | 44 | at | Kentucky (7-6) | 35 | at SEC | ||
| 9/10/2016 | Savannah State (3-7) | 0 | at | Southern Miss | 56 | MEAC (1AA) | ||
| 9/17/2016 | Troy (10-3) | 37 | at | Southern Miss | 31 | SBC | ||
| 9/24/2016 | Southern Miss | 34 | at | UTEP (4-8,2-6) | 7 | |||
| 10/1/2016 | Rice (3-9,2-6) | 28 | at | Southern Miss | 44 | |||
| 10/8/2016 | Southern Miss | 32 | at | Texas-San Antonio (6-7,5-3) | 55 | |||
| 10/15/2016 | Southern Miss | 10 | at | LSU (8-4) | 45 | at SEC | ||
| 10/29/2016 | Marshall (3-9,2-6) | 14 | at | Southern Miss | 24 | |||
| 11/5/2016 | UNC-Charlotte (4-8,3-5) | 38 | at | Southern Miss | 27 | |||
| 11/12/2016 | Southern Miss | 35 | at | Old Dominion (10-3,7-1) | 51 | |||
| 11/19/2016 | Southern Miss | 23 | at | North Texas (5-8,3-5) | 29 | |||
| 11/25/2016 | Louisiana Tech (9-5,6-3) | 24 | at | Southern Miss | 39 | |||
| 12/17/2016 | Southern Miss | 28 | vs | UL Lafayette (6-7) | 21 | New Orleans Bowl | vs SBC |
| vs Southern Miss | vs Other Opponents | Southern Miss compared to OOs | |
| Record: | 6-7 | 72-77 | |
| Points Scored: | 29.54 | 28.52 | -1.02 |
| Points Allowed: | 32.85 | 29.59 | 3.26 |
| Margin: | -3.31 | -1.07 | 2.24 |
| Total Points: | 62.39 | 58.11 | 4.28 |