The 2003 NCAA Men's Water Polo Championship was the 35th annual NCAA Men's Water Polo Championship to determine the national champion of NCAA men's collegiate water polo. Tournament matches were played at the Avery Aquatic Center in Stanford, California during December 2003.^[1]

USC defeated Stanford in the final, 9–7 (in overtime), to win their second national title. The Trojans (24–3) were coached by Jovan Vavic.

The Most Outstanding Players of the tournament were Tony Azevedo (Stanford), who won the award for a record third straight year, and Bozidar Damjanovic (USC). Azevedo and Damjanovic, along with five other players, also comprised the All-Tournament Team.

Azevedo, with 8 goals, was also the tournament's leading scorer.

Since there has only ever been one single national championship for water polo, all NCAA men's water polo programs (whether from Division I, Division II, or Division III) were eligible. A total of 4 teams were invited to contest this championship.

• Site: Avery Aquatic Center, Stanford, California

• Tony Azevedo, Stanford (Most outstanding player)
• Bozidar Damjanovic, USC (Most outstanding player)
• Predrag Damjanov, USC
• Mike Derse, Stanford
• Endre Rex-Kiss, Loyola Marymount
• Peter Varellas, Stanford
• Juraj Zatovic, USC

• NCAA Men's Water Polo Championship
• NCAA Women's Water Polo Championship