Star Wars The Clone Wars: Jedi Alliance takes the player into the world of the all-new Star Wars animated feature film. Experience the combined power when two Jedi join forces to fight as one. Choose your favorite Jedi pair at the start of each mission and experience unique moves and combat skills. With an innovative stylus-based input, controlling the Jedi's movement and Lightsaber combat has never felt more immersive.
- Play through an original story – exclusive to the Nintendo DS – that expands The Clone Wars series in exciting new directions.
- Create your own Jedi dream teams by pairing Jedi Masters and Padawans. For example, team up Anakin Skywalker with Obi-Wan Kenobi, or Ahsoka Tano with Mace Windu.
- Develop the relationship between two Jedi and generate more powerful attacks and special abilities. Replay missions with different character combinations to unlock new areas, collectibles, and other secrets.
- Play with a friend using wireless drop-in/drop-out co-op.
- Control all movement, Lightsaber combat and cinematic action sequences with just the DS stylus.
The storyline involves a trio of Nightsisters. Each segment of the game is opened with narration similar to the narration that opens each episode of The Clone Wars.
When Luminara Unduli and her squad of clones are attacked by Nightsisters, a clone contacts Anakin Skywalker, Obi-Wan Kenobi, Ahsoka Tano, Mace Windu, Plo Koon and Kit Fisto for assistance. Two of the Jedi come to their assistance, where they engage the Nightsisters just before the killers escape with a shipment of stolen lightsaber crystals from Ilum. Two Jedi travel to Rodia, where they combat a Kwazel Maw and again engage a Nightsister. Meanwhile, two more of the Jedi encounter Asajj Ventress, and manage to free Ziro the Hutt from her grasp. Then, two Jedi then go to the planet Christophsis after receiving a call for help from senator Amidala.
After they rescue her, the two jedi uncover a dangerous battleship, the Devastation, a weapon powered by the force, courtesy of Count Dooku. After two more of the Jedi travel to Dathomir to continue their investigation into the Nightsisters, all six of the Jedi have a showdown against Count Dooku, Ventress, and Sai Sircu in the Battle Cruiser Devastation. Ahsoka and Plo Koon pair up against Asajj, Obi Wan and Kit Fisto duel Dooku, and Anakin and Mace combat Sai, who eventually attempts to betray Dooku and Ventress before she is killed. The Jedi leave the ship in flames, and Dooku and Ventress escape in Dooku's Punworcca 116-class interstellar sloop.
The game's original title was Star Wars: The Clone Wars - Day of the Nightsisters, in reference to LucasArts' classic game Day of the Tentacle.