In 1984 Comley and Northern Michigan followed Michigan Tech to the Western Collegiate Hockey Association. In the WCHA, Comley coached NMU to seven 20-win seasons in nine years. He won the WCHA MacNaughton Cup as regular-season champions in 1991 and won the Broadmoor Trophy as play-off champions in 1989, 1991 and 1992. During Northern Michigan's time in the WCHA, the Wildcats made the NCAA tournament in 1989, 1991, 1992 and 1993 winning the 1991 NCAA National Championship in a dramatic triple overtime game against Boston University.