Roger is summoned by Marvin to his factory to take his deed and get his will from Jessica Rabbit to save Toontown from the greedy Judge Doom. Immediately after, Marvin is sniped through his office window and killed. As Roger meets Jessica she is kidnapped by Doom's weasel henchmen. Roger gets help from Eddie Valiant. Through his investigation Roger faces Stupid, Greasy, Psycho and Smarty weasels and finally makes it to Doom's mansion. He makes it past the complex and confront Doom, defeating him and destroying his Dip Machine.
The player controls Roger Rabbit around Toontown to solve objectives to save Toontown and defeat Judge Doom. Roger simply interacts with objects and characters. There are collectible items Roger needs to access certain places and make progress. Toontown has many buildings around the outdoor area which the player can enter. To defeat enemies, the player needs to procure a weapon. Roger has three heart points, that deplete when he takes damage. The player can regain health by collecting carrots. Scattered in the game are traps and ambushing weasels waiting to hurt Roger. The game is over if all his health is gone.