Martin followed his strong sophomore campaign with a spectacular junior year (1991). He completed 310 of 500 passes for 4,125 yards and 35 touchdowns. He again led the Division I-AA in passing (375.0 yards per game) and total offense (394.3 yards per game). With Martin at the helm, Weber State's offense averaged 578.5 yards per game, setting a national record. Martin set Division I-AA records for pass completions (47), passing yards (624), and total offense yards (643) in a game against Idaho State. He also had a spectacular performance against Eastern Washington, throwing seven touchdown passes in that game. For his efforts, Martin was named First Team All-American and was awarded the Walter Payton Award, given annually to the top Division I-AA player in the nation.