The Scotland international striker has sat out the last two games following his second half substitution against Leicester City a little over a week ago.
This week Owen Coyle has revealed that Maloney is suffering from a back problem and will see a specialist about the injury.
Speaking to the Wigan Evening Post Coyle said: "It’s a source of frustration for Shaun and it’s a source of frustration for me because I know he is an outstanding player.
“When he he’s fit and available he is in the Wigan Athletic side, there’s no doubt about that.
“He tweaked his back when he went away with the Scotland squad the other week, although he played both games and was their matchwinner in the second one.
“He wanted to play at Leicester because he cares so much, but I think we all saw that it wasn’t the Shaun Maloney that we all know and love.
“We had to bring him off and his back was still bothering him ahead of the trip to Belgium so he didn’t travel with the rest of the squad.
“He was scanned last week which shown a little irritation, and he’ll see the specialist on Tuesday so we can ascertain exactly what the damage is.
“We’re hoping it’s just the usual wear and tear you would expect from players over the age of 30 and, if he is out, it won’t be for too long.”
Maloney will not take part in tonight's game with Manchester City in the Carling Cup and is likely to be absent from Saturday's game at Watford.