Mahoney shot 4 for 6 on 3-pointers, Paul Atkinson scored 14 with seven rebounds for Yale (11-4), which earned its fourth consecutive home victory.
Eric Monroe added 11 points. EJ Jarvis had seven rebounds for the hosts. Yale has won both its contests this season when scoring more than 100. The Bulldogs recorded a season-high 28 assists on 40-of-69 (58%) shooting.
Nate Patenude had 21 points for the Wildcats and Brian Hogan-Gary 14 points.
Yale faces Brown at home on Friday.