The Justice League Chronicles follows the story of the six members of the Justice League as they investigate a powerful psychic presence in the Arctic. The game is based on the Cartoon Network's Justice League animated series and features three sets of levels, each with its own unique pair of heroes.
Gameplay involves controlling a pair of super heroes, switching between them using the select button, while an inactive character is handled by the AI. In cooperative mode, two players can team up to control different characters. The game features a pseudo-3D presentation, allowing characters to move along the x and z axes. Levels range from moving horizontally or vertically to being stuck in one place with enemies approaching.
The fighting system utilizes standard jump and attack buttons, but also includes special attacks unique to each character, which are controlled by a special meter below the health meter. Using a character's special attack depletes this meter, and it must fill up again before it can be used again.