Mulqueen was an assistant coach at Rutgers University from 1988 to 1994. During that time Rutgers went to 3 Final Fours 1989, 1990 (National Finalist), and 1994.
He was goalkeeping coach for the MetroStars from 1996 to 1999 and the Kansas City Wizards from 2000 to 2004.[4] Kansas City during that time won the 2000 MLS Supporters Shield, 2000 MLS Cup and the 2004 US Open Cup.
U.S. goalkeeper Tim Howard credits Mulqueen with helping to establish his own career. Mulqueen spent many nights training Howard, and waived fees so that Howard could get more experience from the age of 12.[5]
In August 2018, he was announced as the first head coach of Memphis 901 FC.
Personal
Mulqueen is a member of St.Joseph’s Metuchen High School Athletic Hall of Fame, St. Joseph’s University Soccer Hall of Fame, and Rutgers University Athletic Hall of Fame.