Thomas ran 10 yards to give Temple a 14-10 lead in the second quarter and added 16-yard scoring catch from P.J. Walker for a 21-10 halftime lead.
Ryquell Armstead added a pair of 16-yard touchdown runs in the third quarter, sandwiched around Sean Chandler's 22-yard interception return for a score.
Walker hit 11 of 15 passes for 183 yards. His other scoring pass of 22 yards went to Robby Anderson in the first quarter. Backup quarterback Frank Nutile threw a 10-yard score to David Hood in the final quarter.