Harrington finished fourth in the voting for the Heisman Trophy in 2001, following a campaign for the award that included a billboard in Times Square promoting him as "Joey Heisman." He earned numerous honors, including first-team All-American, Pac-10 Offensive Player of the Year, and second-team honors from The Sporting News. He was one of five finalists for the Johnny Unitas Golden Arm Award in 2001. EA Sports selected him for the cover of the 2003 edition of their NCAA Football video game series. Harrington was given the nickname "Captain Comeback" among fans for his ability to lead Oregon to victory in late game situations, accumulating a record of 11-2 in games in which the Ducks trailed or were tied in the fourth quarter.