The 2013 Saint Francis Cougars football team represented the University of Saint Francis, located in Fort Wayne, Indiana, in the 2013 NAIA football season. They were led by head coach Kevin Donley, who served his 16th year as the first and only head coach in the history of Saint Francis football. The Cougars played their home games at Bishop John D'Arcy Stadium and were members of the Mid-States Football Association (MSFA) Mideast League (MEL). The Cougars finished 1st in the MSFA MEL division and received an automatic bid to participate in the postseason NAIA playoffs.