Wigan have banned more than a dozen fans as a result of incidents during last weekend's derby victory at Bolton.
A number of flares were set off in the Latics end at the Reebok Stadium and the club have responded by writing to 17 spectators, predominantly aged between 15 and 22, to inform them they are no longer welcome to attend matches.
"We were extremely disappointed by the behaviour of a small minority of spectators who tarnished what was a fantastic day for the club," Wigan chief executive Jonathan Jackson said in a statement.
"We have worked closely with Greater Manchester Police who will be issuing official football banning orders on the majority of those arrested during the game.
"We wish to protect the image of Wigan Athletic as a family club and do not welcome those who seek to make trouble and endanger the safety of our supporters."
The club, keen to maintain their record of good behaviour, say prior to Saturday's game only three Wigan fans had been arrested this season.