Mars is running out of water, and soon the Martian mice will perish. Their only hope is the Regenerator, a machine capable of converting dirt into any substance required (including water). But the evil Catatonians, led by Supreme Commander Hairball, have launched an attack in hope of capturing the Regenerator for their own purposes. Will the Biker Mice from Mars be able to hold out against the Catatonian assault?
With the only Regenerator destroyed, things are looking bad for Mars. The Biker Mice must take General Stoker (creator of the Regenerator) to Planet Earth where he can find the necessary tetra-hydrocarbons required to build another machine. But there is a surprise in store for the Biker Mice on their return to Chicago in the form of developer Ronaldo Rump, who has joined forces with the Catatonians to obtain a Regenerator (the ultimate land-development tool).
Things heat up for the Biker Mice when the infamous Sir Richard Brand-Something arrives with hopes of winning a Regenerator for his own purposes. Joining forces with Supreme Commander Hairball, Sir Richard puts his plans (and his evil robots Bangers and Mash) into action – giving the Biker Mice a ride for their money. In the meantime, General Stoker is finding that the Earth's tetra-hydrocarbons are producing some unexpected (and unwanted) side effects.
General Stoker's exposure to tetra-hydrocarbons has worsened his condition, turning him into the mad "Stoker Rat". He is loose in New York City, where Rump has captured him ito force Stoker to build another Regenerator for Rump so he can become richer. Will Stoker turn traitor? Can the Biker Mice rescue him from the clutches of Ronaldo Rump and get him back to work in the effort to save Mars?
The Biker Mice turn their motorcycles into radical Swamp Cycles when they discover a mouse damsel-in-distress stuck in the mud. Is this attractive mouse really what she appears to be – or could she be the Catatonian shape-shifter, Catalina Catacall, on a secret mission to trick the Biker Mice into revealing Stoker's secret lab where he is building a new Regenerator for Mars?
The Biker Mice From Mars are reduced to the "Motor Car" Mice From Mars when their motorcycles are stolen by Ronaldo Rump and his evil minions. Just one problem -while they may be the universe's baddest mamajammers on bikes, nobody ever taught them how to drive a car- let alone a VW Camper Van!
The Biker Mice are lured into a secret underground world carefully hidden beneath a Rump Mini-mart where they encounter not only one of the nastiest baddies of all time (the Pit Boss), but an unexpected group of enemies they have not seen for a long time: the Plutarkians!
Due to a freak accident Ronaldo Rump is wandering the streets of Chicago without memory (or hairpiece), holding onto the Regenerator. Of course this news makes its way to both the Catatonians and the Biker Mice, who are both chasing Ronaldo.