Chris Flynn was recruited from Quebec to St. Mary’s by Coach Larry Uteck to play in 1987. At the time, the Huskies program was struggling mightily having finished the 1984 to 1986 seasons with a combined 1-20 record with the lone win coming in 1984. The team had not appeared in a title game since 1974. Flynn was an immediate starter and led the team to an Atlantic title in his first season before losing to the eventual Vanier Cup champion McGill Redmen on a last-second field goal. In his second year, Flynn led the Huskies to a perfect 7-0 record and another Atlantic title. St. Mary’s trounced Bishops 44-10 in Halifax to send the team to the Vanier Cup. Husky Stadium was buzzing that day with reports from TSN stating that concession stands ran out of hot dogs and hamburgers. Flynn was hurt near the end of the 4th quarter on a late hit and could not play in the Vanier Cup that saw the Huskies downed by the Calgary Dinosaurs. Flynn led the Huskies to another perfect 7-0 season in 1989 and another AUAA title but fell to the Western Mustangs 38-33 in the Atlantic Bowl. Flynn led the Huskies to a 6-1 season in 1990 and a fourth consecutive AUAA title and this time beat the Western Mustangs 31-30 in an absolutely thrilling Atlantic Bowl. The Saskatchewan Huskies defeated St. Mary's 23-20 in the Vanier Cup. For his CIS career, Flynn posted a sparkling 27-2 regular season record.
Flynn signed with the WLAF's Montreal Machine in February 1991 and was with the team for their two years of existence. Despite promises of being big component of the team, Flynn was never given an opportunity and played just a few snaps. He played pro ball in France for the next four years and signed with the Ottawa Rough Riders in 1996 and played 3 games for the team that season.
Flynn is the only player to win the Hec Creighton Trophy as the most outstanding Canadian football player in Canadian Interuniversity Sport three times. He was the first CIS player to be inducted into the Canadian Football Hall of Fame (2011). It is a shame he was not given a shot to develop in the CFL because he was a dazzling playmaker.