Schedule:
| Game | Date | Away Team (Rank) | Away Score | Home Team (Rank) | Home Score | Game Status | Result | Margin |
|---|---|---|---|---|---|---|---|---|
| 1 | 2016-09-03 | New Hampshire | 0 | San Diego State | 31 | Final | L | -31 |
| 2 | 2016-09-10 | Holy Cross | 28 | New Hampshire | 39 | Final | W | 11 |
| 3 | 2016-09-17 | New Hampshire | 21 | Dartmouth | 22 | Final | L | -1 |
| 4 | 2016-09-24 | New Hampshire | 39 | Rhode Island | 17 | Final | W | 22 |
| 5 | 2016-10-01 | William & Mary | 12 | New Hampshire | 21 | Final | W | 9 |
| 6 | 2016-10-07 | New Hampshire | 13 | Elon | 10 | Final | W | 3 |
| 7 | 2016-10-15 | James Madison | 42 | New Hampshire | 39 | Final | L | -3 |
| 8 | 2016-10-22 | New Hampshire | 21 | Towson | 7 | Final | W | 14 |
| 9 | 2016-10-29 | Stony Brook | 14 | New Hampshire | 43 | Final | W | 29 |
| 10 | 2016-11-12 | Albany | 36 | New Hampshire | 25 | Final | L | -11 |
| 11 | 2016-11-19 | New Hampshire | 24 | Maine | 21 | Final | W | 3 |
| 12 | 2016-11-26 | Lehigh | 21 | New Hampshire | 64 | Final | W | 43 |
| 13 | 2016-12-03 | New Hampshire | 22 | James Madison | 55 | Final | L | -33 |