Carroo, who was benched because of a curfew violation, caught touchdown passes of 55, 56 and 18 yards from Chris Laviano in a 28-point third quarter that broke the game open. He now has a career school-record 22 touchdown receptions.
Janarion Grant ignited the spurt by returning the opening kickoff 80 yards.
Quarterback Hayden Rettig threw a touchdown and ran for another in the first half to give the Scarlet Knights a 21-13 lead, but Flood opted to switch to Laviano, who also was suspended for a curfew violation, and it worked.
It just added another problem for Rutgers, a quarterback controversy in addition to the investigation and the player dismissals, which happened 10 minutes before the opening kickoff.