The comic opens with Roger and Jessica watching a documentary about the origin of Judge Doom. The documentary mentions the original character cel used to create Doom. Eddie Valiant is given credit for ending Doom's reign of terror by dissolving him in a puddle of Dip, stated as 'A victim of his own evil creation', and putting a stop to his plans to erase Toontown and build a freeway where it would have once stood.
A weasel is shown watching the documentary as well. He goes with two other weasels to find the original cel of Doom. They use a multiplane camera to bring Doom back to life. With time, Doom remembers everything that happened to him, and now wants revenge against both Eddie and Roger for ruining his plans.
Meanwhile, Eddie is called by C.B. Maroon, the new executive of Maroon Cartoons, who announces they are reopening the studio, and pays Valiant $500 to run a search on the background of Roger. Valiant finds Roger's records clean as a whistle.
Meanwhile, Roger and Jessica are enjoying life at home as much as possible, despite Roger's unemployment following the close of Maroon Cartoon Studios. Roger gets a call from Maroon Cartoons, saying they are reopening the studio, and that they want Roger to come work for them. Roger accepts the offer, and the next day, Roger meets C.B. Maroon, who starts Roger off with a very low-budget film (depicted in a Hanna-Barbera-esque style). Roger angrily objects to his part in the film, and is fired ("Get me that other rabbit with the tiger for a buddy!").
The next day, Roger finds dozens of scandalous, untrue headlines centered on himself. He turns to Valiant to find out why this is happening. Valiant first meets with C.B. Maroon, and questions him about firing Roger. Maroon reveals himself as Doom, tells his plan to ruin Roger's reputation and then kill him. He and the weasels knock Valiant out and lock him up in a storage locker, where Valiant meets the real C.B. Maroon. Doom, as C.B. Maroon, puts Maroon Studios up for auction, and the studio will be officially sold at noon.
Meanwhile, Roger and Jessica are about to leave for Simi Valley, but first go to Valiant's office to say goodbye, only to find the office ransacked. Jessica finds indentations of the address Valiant wrote on the last piece of paper he used. Rushing to the address, they find and rescue Eddie Valiant and C.B. Maroon. They leave to save Maroon Studios. Valiant sprays him and his weasels with the Dip-filled gag squirt gun, and before dissolving, "Maroon" reveals himself to be Doom.
The real C.B. Maroon announces he is reopening Maroon Cartoon Studios, and will be providing all the toon employees with work, including Roger Rabbit and Baby Herman with a line-up of new animated short films, starting with Tummy Trouble.