Alice tumbles down a rabbit hole which appears beneath her feet and lands in Wonderland. Meeting the Cheshire Cat, Alice learns a "new law" rules Wonderland and it is has been corrupted again, but this time by an outside force. Venturing to the Mad Hatter's steampunk domain, Alice finds the Mad Hatter in pieces. Recovering his body parts, Alice and Mad Hatter break into the heart of the clockwork factory,
learning the March Hare and the Dormouse have taken over and constructed the Infernal Train, a hellish locomotive designed to destroy Wonderland. The train is aided by deformed oily monsters called the Ruin, made out of clockwork and doll parts, adhered by the pollution that is currently corrupting Wonderland. Additionally, the two of them have created a large robot with which they intend to destroy the Hatter and Alice, but the robot malfunctions and falls to pieces before they can do so, killing the two in the process and causing the Hatter's Domain to begin falling apart. The Mad Hatter runs to comfort the bodies of his former friends, warning Alice to find the Mock Turtle who used to run Wonderland's railway, before dying in the factory's collapse.