1998–99 NCAA Division I men's ice hockey season

The 1998–99 NCAA Division I men's ice hockey season began on October 3, 1998, and concluded with the 1999 NCAA Division I Men's Ice Hockey Tournament's championship game on April 3, 1999, at the Arrowhead Pond of Anaheim in Anaheim, California. This was the 52nd season in which an NCAA ice hockey championship was held and is the 105th year overall where an NCAA school fielded a team.

The 1998-99 season was the inaugural year for Metro Atlantic Athletic Conference's hockey division. Because only Canisius, Fairfield, and Iona were full members of the MAAC, five additional associate members were included to make the conference viable. All five teams had been part of ECAC lower classifications in the past (as had Canisius, Fairfield and Iona) and were promoted to Division I for the 1998-99 season.

Pre-season polls
The top teams in the nation as ranked before the start of the season.

The WMPL Baker's Dozen poll was rebranded the WMPL/D&N Bank Baker's Dozen poll and was voted on by coaches. The U.S. College Hockey Online poll was voted on by coaches, media, and NHL scouts. The USA Today/American Hockey Magazine poll was voted on by coaches and media.

Final regular season polls
The WMPL poll was released before the conference tournaments. The USA Today and USCHO polls were released before the NCAA tournament.

1999 NCAA Tournament
Note: * denotes overtime period(s)

Scoring leaders
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

Leading goaltenders
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.

GP = Games played; Min = Minutes played; W = Wins; L = Losses; OT = Overtime/shootout losses; GA = Goals against; SO = Shutouts; SV% = Save percentage; GAA = Goals against average

1999 NHL Entry Draft
† incoming freshman