1999 NCAA Division II football season
The 1999 NCAA Division II football season, part of college football in the United States organized by the National Collegiate Athletic Association at the Division II level, began on August 28, 1999, and concluded with the NCAA Division II Football Championship on December 11, 1999, at Braly Municipal Stadium in Florence, Alabama, hosted by the University of North Alabama.
Northwest Missouri State defeated Carson–Newman in the championship game, 58–52 after four overtimes, to win their second Division II national title.
The Harlon Hill Trophy was awarded to Corte McGuffey, quarterback from Northern Colorado.
Conference changes and new programs
Conference changes
- The Midwest Intercollegiate Football Conference transferred its football sponsorship, and 13 of its 14 members, back to the Great Lakes Intercollegiate Athletic Conference after the two leagues merged prior the season. The MIFC was then dissolved and GLIAC resumed its football championship for the first since 1990.
| School | 1998 Conference | 1999 Conference |
| Alabama A&M | D-II Independent | SWAC |
| Albany | Eastern | Northeast |
| Ashland | MIFC | GLIAC |
| Elon | D-II Independent | I-AA Independent |
| Ferris State | MIFC | GLIAC |
| Findlay | MIFC | GLIAC |
| Grand Valley State | MIFC | GLIAC |
| Hillsdale | MIFC | GLIAC |
| Indianapolis | MIFC | GLIAC |
| Mercyhurst | MIFC | GLIAC |
| Michigan Tech | MIFC | GLIAC |
| Minnesota Crookston | NDCAC | NSIC |
| Minnesota Morris | D-II Independent | NSIC |
| Northern Michigan | MIFC | GLIAC |
| Northwood | MIFC | GLIAC |
| Saginaw Valley State | MIFC | GLIAC |
| Saint Anselm | Program revived | Eastern |
| St. Francis | MIFC | MSFA |
| Stony Brook | Eastern | Northeast |
| Wayne State | MIFC | GLIAC |
| Westminster | MIFC | GLIAC |
Program changes
- After Mankato State University changed its name to Minnesota State University, Mankato in 1999, the Mankato State Mavericks became the Minnesota State–Mankato Mavericks.
Conference standings
Conference summaries
| Conference Champions |
Central Intercollegiate Athletic Association – Winston-Salem State Columbia Football Association – Western Washington Eastern Collegiate Football Conference – American International Great Lakes Intercollegiate Athletic Conference – Ferris State and Northwood Gulf South Conference – Arkansas Tech Lone Star Conference – Central Oklahoma, Northeastern State, and Southeastern Oklahoma State Mid-America Intercollegiate Athletics Association – Northwest Missouri State North Central Conference – North Dakota and Northern Colorado Northern Sun Intercollegiate Conference – Northern State Pennsylvania State Athletic Conference – West Chester, Slippery Rock Rocky Mountain Athletic Conference – Chadron State and New Mexico Highlands South Atlantic Conference – Carson-Newman Southern Intercollegiate Athletic Conference – Fort Valley State and Tuskegee West Virginia Intercollegiate Athletic Conference – Shepherd |