Winona State University competes in NCAA Division II (with football).
| Name | Participants | |
|---|---|---|
| Men | Women | |
| Baseball | 32 | 0 |
| Basketball | 15 | 16 |
| Football | 117 | 0 |
| Golf | 9 | 10 |
| Gymnastics | 0 | 21 |
| Soccer | 0 | 28 |
| Softball | 0 | 18 |
| Tennis | 0 | 8 |
| Track and Field, Indoor | 0 | 62 |
| Track and Field, Outdoor | 0 | 60 |
| Track and Field, X-Country | 16 | 22 |
| Volleyball | 0 | 17 |