Dillon comes from Colorado State-Pueblo where he spent the last four years. During his time there, he was named Rocky Mountain Athletic Conference Coach of the Year three times.
Under Dillon, the ThunderWolves emerged from last place in the RMAC the season before he arrived, and eventually won a conference championship in 2012.
"I believe Greg will be a great fit not only to lead our golf programs but also for the community of St. Joseph," McGuffin said.
Dillon replaces Cathy Habermehl and Jim Perry who retired in the summer.