The 1999–2000 NCAA Division I men's ice hockey season began on October 1, 1999, and concluded with the 2000 NCAA Division I Men's Ice Hockey Tournament's championship game on April 8, 2000, at the Providence Civic Center in Providence, Rhode Island.

The 1999–2000 season was the inaugural year for College Hockey America, a seven-team conference (Wayne State begins conference play the following year) that was created for the purpose of stabilizing all the remaining independent Division I ice hockey teams.

The U.S. College Hockey Online poll was voted on by coaches, media, and NHL scouts.

Note: * denotes overtime period(s) [4] The following players led the league in points at the conclusion of the season.

GP = Games played; G = Goals; A = Assists; Pts = Points; PIM = Penalty minutes [5] The following goaltenders led the league in goals against average at the end of the regular season while playing at least 33% of their team's total minutes.