The story of Dr. Mario & Panel de Pon revolves around Dr. Mario's battles against viruses and his friends' attempts to solve the Puzzle League. In this game, you play as a character who moves bi-color pills into formation to wipe out viruses in various gameplay modes.
The gameplay of Dr. Mario & Panel de Pon features several modes, including Classic, Flash, versus CPU, and Vertical for Dr. Mario, and Marathon, versus CPU, Timed, Line, Garbage, and Puzzle for Puzzle League. You can play the Flash and versus CPU modes via wireless link with another player in Puzzle League.