

They fought Metal Sonic (disguised as Eggman) and his robots each with their own intentions - Shadow wanted to find out about his past, as he has amnesia, Omega wants revenge on Eggman for imprisoning him, and Rouge wants Eggman's treasure. He was released by Rouge, and fought Omega before Rouge broke up the fight, and the three became Team Dark. However, Shadow was rescued by one of Eggman's robots and kept in a tank while Eggman made robot versions of him. Then Sonic and Shadow used Chaos Control to set the ARK back into its original position, but Shadow fell to Earth and was presumed dead. But Sonic and Shadow turned into their Super forms with Chaos Emeralds and fought Finalhazard in space, with Shadow finishing him off. Shadow fought the one controlling the ARK to collide with Earth, Biolizard, who then transformed into the Finalhazard and merged with the Eclipse Cannon. Later, Amy convinced him to help save the world, realizing that this was what Maria wanted.

Sonic faced Shadow again on the Space Colony ARK, but defeated him. On his way to save Rouge, who had been trapped inside a safe, Shadow fought Sonic, but in the end escaped Prison Island with Rouge and the Chaos Emeralds. Later, Rouge joined Eggman and Shadow's team and they planned to take three Chaos Emeralds from Prison Island, with Shadow blowing Prison Island up with explosives. GUN thought Sonic was responsible and sent him to Prison Island, but not before Shadow encountered him for the first time. Seeking revenge on humanity for the death of Maria, Shadow destroyed military buildings and robbed a bank.

However, GUN shut down the ultimate life form project, killed Maria, and sealed Shadow away on Prison Island. When Gerald realized Black Doom's intentions, he intended for Shadow to kill Black Doom and destroy the Black Comet. While Gerald created him for the benefit of mankind, Black Doom intended him to destroy the earth. Gerald created him with Black Doom's blood. Shadow's backstory is revealed in Sonic Adventure 2 and Shadow the Hedgehog.
