From 1953 to 1955, Morton was the line coach at DePauw University. On February 23, 1956, he was hired for the same position at the University of Toledo.[6] Three months later, head coach Forrest England was given a year's leave due to illness and Morton was promoted to head coach.[7] Toledo went 1–7–1 in 1956 and both Morton and England were fired at the end of the season.[8]
From 1957 to 1958, Morton was the defensive line coach for the Green Bay Packers of the NFL.[9] In 1959, he returned to the college ranks as an assistant at Marquette University.[10]
Morton was the head coach of the Grand Rapids Blazers of the United Football League in 1961 and led the team to the league championship.[11][12] In 1962, he was named head coach and director of player personnel for the Jackson Panthers of the American Football Conference, but the league folded before the season began.[13] He returned to Grand Rapids in 1963, but resigned prior to the 1964 season.[14][12] He instead spent that year as the defensive coordinator of the UFL's Joliet Explorers.[15]