Pappageorge hit four 3-pointers and was 7 of 7 from the line, as he set a career high in a second consecutive game.
But Fresno State was hot first, taking a 14-6 lead on a dunk by Tyler Johnson, who would score 10 points.
At halftime, Pappageorge had scored 17 points and the 49ers were up 37-34.
Fresno State kept knocking. With just over a minute in the game, they cut the lead to five. But James Ennis tipped in a free throw miss and Pappageorge would make four free throws to secure the win.
Mike Caffey scored 13 points for the 49ers (2-3). Ennis had 11 points, nine rebounds. Dan Jennings added 10.
Allen Huddleston led the Bulldogs (3-2) with 13 points. Kevin Foster had 11 rebounds.