Bonk was injured when he was hit by a puck during a 4-3 loss on Saturday to the New York Rangers. He sat out a 3-0 loss on Sunday to the New Jersey Devils. "Radek is not going to be in the game - his neck is still sore," coach Guy Carbonneau said.
Bonk, who has six goals and eight assists in 41 games, centres the Canadiens' top checking line.
In his absence, Tomas Plekanec takes his spot alongside Mike Johnson and left winger Chris Higgins drops onto that trio from the first line, while Guillaume Latendresse was promoted.
Forward Garth Murray will miss a third game with a hand injury, but he is expected to come off the injured reserve list on Wednesday, Carbonneau added.
Centre Steve Begin will sit out a 14th game with a back injury.
"He's getting stronger every day, but when he can go onto the ice, no one knows," Carbonneau said of Begin.
For the Thrashers, winger Slava Kozlov was set to return to action after sitting out a game following a blow to the head from Ladislav Nagy of the Phoenix Coyotes during a game on Friday.
"I just took a couple of days off to make sure there were no (concussion) symptoms," said Kozlov. "I practised (Monday) with the team and there was no discomfort."