"Enemy of My Enemy" - The Ship was used by the Kraang. Piloted by two Kraang, it is fast, maneuverable, and dangerous. It had advanced cloaking technology. It is composed of a round main body with three short tentacles sprouting from the belly. These tentacles are strong enough to lift a car and toss it several yards. It's main weapon is an energy beam that is fired from an "eye" in the center of the main body.
"The Mutation Situation" - The Kraang use the ship to transport mutagen from TCRI to Shredder's hideout, but their plans are frustrated by the turtles.
"The Invasion" - The Stealth Ship is one of the many vehicles/weapons used by the Kraang during their invasion.
"Race with the Demon" - Casey and Donatello use parts found inside of the Kraang Stealth Ship buried under the farmhouse to construct their hot-rod.