Schedule:
| Game | Date | Away Team (Rank) | Away Score | Home Team (Rank) | Home Score | Game Status | Result | Margin |
|---|---|---|---|---|---|---|---|---|
| 1 | 2016-09-01 | South Dakota | 21 | New Mexico | 48 | Final | L | -27 |
| 2 | 2016-09-10 | Weber State | 49 | South Dakota | 52 | Final/2OT | W | 3 |
| 3 | 2016-09-17 | South Dakota | 44 | North Dakota | 47 | Final/2OT | L | -3 |
| 4 | 2016-10-01 | South Dakota | 20 | Youngstown State | 30 | Final | L | -10 |
| 5 | 2016-10-08 | Northern Iowa | 25 | South Dakota | 28 | Final | W | 3 |
| 6 | 2016-10-15 | South Dakota | 33 | Indiana State | 30 | Final/2OT | W | 3 |
| 7 | 2016-10-22 | Illinois State | 24 | South Dakota | 27 | Final | W | 3 |
| 8 | 2016-10-29 | Western Illinois | 35 | South Dakota | 34 | Final | L | -1 |
| 9 | 2016-11-05 | South Dakota | 28 | Southern Illinois | 35 | Final | L | -7 |
| 10 | 2016-11-12 | South Dakota | 21 | South Dakota State | 28 | Final | L | -7 |
| 11 | 2016-11-19 | North Dakota State | 28 | South Dakota | 21 | Final | L | -7 |