Padmé Amidala and C-3PO are taken hostage by General Grievous, leaving Anakin and Obi-Wan to save the Senator and complete the destruction of the Malevolence.

Ahsoka and Jedi Master Luminara escort the captured notorious Separatist leader Nute Gunray to Coruscant so he can stand trial for his crimes. However, they are unaware that Count Dooku has sent his assassin, Asajj Ventress, to free their captive. With the help of Senate Commandos, the Jedi have to thwart Ventress's efforts to free their prisoner, despite the traitorous plans of Senate Guard Captain Argyus.

Jedi Master Kit Fisto and his former Padawan, the Mon Calamari Jedi Nahdar Vebb, track escaped prisoner Nute Gunray to a remote world. Following Nute into a mysterious den filled with strange creatures, weapons, and war-time artifacts, the Jedi discover it is the trap-laden lair of General Grievous! Learning that Count Dooku has led the Jedi there in order to punish Grievous for his recent failures, the General is determined to prove his abilities and destroy the Jedi. Kit and Nahdar, along with a contingent of clones, must now fight their way past Grievous and his caretaker droid A-4D to avoid being caught in General's evil clutches forever.

Anakin, Obi-wan, and Ki-Adi-Mundi lead an invasion to stop Poggle the Lesser and the Geonosians from rebuilding their droid army. Things go terribly awry when Geonosian forces shoot down the Republic ships, which crash off-course. Under mounting pressure to accomplish their mission, Anakin, Obi-Wan, and Ki-Adi-Mundi each have their own set of challenges to overcome -- hordes of enemy troops, deadly traps, unforgiving terrain, and a massive energy shield.

Anakin, Ahsoka, Luminara Unduli and her Padawan, Barriss Offee, lead a mission to destroy a droid factory on Geonosis. But Poggle the Lesser has other plans as he deploys his newest weapon, the indestructible super tanks. Desperate to accomplish their mission before the foundry comes online, the Jedi devise a daring plan in which Anakin and Luminara will act as decoys, diverting the super tanks, while Ahsoka and Barriss infiltrate the plant via a labyrinth of catacombs beneath the city. The plan is risky. The stakes are high. It's their only option, but are the Padawans up to the challenge?

After a battle to destroy a new droid factory on Geonosis, Jedi Master Luminara Unduli disappears while tracking Poggle the Lesser. Obi-Wan and Anakin lead a platoon of clone troopers in search of her. Following her trail, our heroes descend deep into the lair of Karina the Great. To their horror, they learn that the hive is alive and teeming with undead defenders. Apparently, Karina can reanimate and control her subjects. Will Obi-Wan and Anakin overcome Karina's undead horde and find Luminara before it's too late?

Medical supplies are desperately needed for a crucial Republic battlefront. While the Jedi Knights transport Poggle the Lesser as a prisoner to Coruscant, the Padawans Barriss Offee and Ahsoka Tano are dispatched to escort the medical frigate to its destination. When Geonosian brain worms take control of the clone troopers aboard their supply ship, Ahsoka and Barriss must battle to stop the vessel from unleashing the deadly plague upon the galaxy.