The 1999 NCAA Division II men's basketball tournament was the 43rd annual single-elimination tournament to determine the national champion of men's NCAA Division II college basketball in the United States.
Officially culminating the 1998–99 NCAA Division II men's basketball season, the tournament featured forty-eight teams from around the country.
The Elite Eight, national semifinals, and championship were again played at the Commonwealth Convention Center in Louisville, Kentucky.
Kentucky Wesleyan (35–2) defeated Metro State in the final, 75–60, to win their record seventh Division II national championship.
For the second consecutive year, KWC's Antonio Garcia was the Most Outstanding Player.