Muskegon, which came into the night with three straight wins and 10 victories in their last 10 games against the Flying Aces (formerly the Bloomington Thunder), fell to 26-21-2 on the season.
The Lumberjacks will return home on Wednesday to face the Chicago Steel at L.C. Walker Arena. Faceoff is slated for 7:15 p.m.
Muskegon opened the scoring with a goal from Emilio Petterson at the 9:47 mark of the first period.
The Flying Aces responded with goals from Brady Smith and Calen Kiefiuk to give Central Illinois a 2-1 advantage after the first period.
Central Illinois added two more goals early in the second stanza to increase its lead to 4-1, with tallies from Sebastian Dirven and Alex Barber.
Muskegon cut its deficit to 4-2 on a Wyatt Bongiovanni goal at the 3:34 mark of the second period.
The Flying Aces finished the second period with a tally by Kiefiuk to take a 5-2 lead.
The Lumberjacks collected a pair of goals midway through the third period from Anthony Del Gaizo and Vincent de Mey to cut the deficit to 5-4.
Muskegon tried to tie the game late in the contest by pulling its goalie for an extra attacker, but failed to score the equalizer.
The Lumberjacks outshot Central Illinois by a 40-22 margin. Muskegon goalie Keegan Karki stopped 17 of 22 shots.