Van Gundy and Barnes said after the Magic beat Charlotte on Wednesday night that they were not happy with the way officials called the game on Dwight Howard.
Orlando's All-Star center has been in foul trouble the first two games of the series.
Barnes said the officials need "to stop calling such tic-tac fouls on him." Van Gundy said among other things that he doesn't "see the other great players in this league on the bench all the time with foul trouble, especially on marginal calls."
The Magic lead the Bobcats 2-0. Game 3 is Saturday in Charlotte.