With the help of his Padawan Ahsoka and Jedi Master Plo Koon, Anakin utilizes new long-range Y-wing bombers to lead a bold strike on General Grievous' warship, the Malevolence, and its destructive weapon.

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.

Arriving on the desolate ice world of Orto Plutonia, Anakin Skywalker and Obi-Wan Kenobi investigate the disappearance of a clone security force stationed on a remote outpost. The Jedi, accompanied by Senator Riyo Chuchi and Chairman Cho of the nearby moon of Pantora, soon discover their clone troopers were attacked by a tribe of furry natives known as the Talz. Fierce beast-riding warriors, the Talz are very territorial and only want to be left alone. The Jedi manage to negotiate peace with the Talz chieftain, Thi-Sen, when greedy Chairman Cho breaks it by insisting the planet and the Talz are under his power. The resulting conflict escalates into war between the senator led clones and the Talz, with the Jedi in the middle.

Ryloth, home world of the Twi'lek people, has been subjected to military occupation by the droid army of the Separatists, and surrounded by a blockade of Trade Federation battleships. While launching a surprise attack against the blockade, Ahsoka disobeys Anakin's orders and ends up losing most of her squadron. Even though she's emotionally rocked by this failure, Anakin helps her learn to persevere, placing her in charge of another risky attack.

Cad Bane has stolen a Jedi holocron which holds the secret locations of the galaxy's Force-sensitive children. Bane is tasked by Darth Sidious to kidnap several of the children to train as Sith spies. On one such kidnapping attempt, Bane is captured by Anakin and Ahsoka and brought before Obi-Wan and Mace Windu to have his mind probed. Unable to resist the combined Force powers of the Jedi, Bane agrees to lead Kenobi and Windu to his hidden base while Anakin and Ahsoka venture to Mustafar to save the stolen children from Darth Sidious' evil plot.

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.

Duchess Satine travels from Mandalore to Coruscant on a diplomatic mission, with Obi-Wan Kenobi, Anakin Skywalker and a team of troopers to defend her. As her luxurious starship, Coronet, makes its way through hyperspace, the Jedi must stop several assassination attempts, and Anakin discovers that Obi-Wan and the Duchess have a history together.

On Coruscant, word reaches Duchess Satine that Death Watch is mobilizing, sparking a pre-emptive Republic invasion. On the run from Republic authorities, Satine and Obi-Wan set off to discover the group's true motives.

When Senator Onaconda Farr dies under suspicious circumstances and the local Inspector appears incompetent, Padmé; sets out to find the person who poisoned her mentor. Following a trail of clues, Padmé and Bail Organa delve into a dangerous world of backstabbing, lies, and secrets controlled by the powerful Senators Mee Deechi and Halle Burtoni. Padmé's search forces her to risk her career and ideals but the true identity of the assassin is even more destructive than she could imagine.

Ryloth is under siege. Trapped on the surface, Jedi Master Di rallies the local forces with the help of Cham Syndulla. Desperate to save them, the Jedi Council dispatches Senator Bail Organa and Representative Jar Jar Binks to the planet Toydaria, where they are to convince the neutral regent, King Katuunko, to send aid to Ryloth. Bail and Jar Jar must convince Toydaria that their cause is just -- before it's too late. Trade Federation envoy Lott Dod attempts to prevent the Toydarians from giving up their neutrality. Katuunko follows his conscience and secretly aids the Republic, which Jar Jar is able to keep secret from the snooping Trade Federation agents with his inimitable distractions.

In the middle of a routine shopping trip on Coruscant, C-3PO is abducted by the bounty hunter Cad Bane. Bane is looking for information about the Senate building on behalf of Jabba the Hutt. Finding C-3PO devoid of useful information, Bane and his accomplices kidnap R2-D2 and extract the vital data, before memory-wiping the droids of the incident, and letting them on their way. The floor-plans and security details of the Senate building are part of a plot engineered by the Hutt families to free their imprisoned brother, Ziro the Hutt, who holds potentially damaging information about Hutt activities.

Before the Jedi can leave Mortis, the Son takes Ahsoka captive in an attempt to entice Anakin into joining him to use their combined strength to overpower his Father and Sister. To this end, the Son casts Ahsoka under the spell of the dark side. Meanwhile, the Father attempts to stave off a disastrous showdown between his children and maintain the Force's increasingly precarious balance on the planet. Fearing that the Son may be unstoppable, the Daughter does the forbidden by taking Obi-Wan Kenobi to the Altar of Mortis, wherein is kept the Dagger of Mortis, a weapon capable of killing a Force-wielder. The Son steals the weapon, and attempts to use it against his Father to steal his power and end his rule, but the Daughter sacrifices herself, placing herself in front of the blade.

With freed prisoners in their possession and the brutal warden attempting desperately to thwart them, Obi-Wan and Anakin search for a way out of the Citadel and back to Coruscant. The prison, however, has more traps, perils and pitfalls in store for them than they had imagined and they must work past their differences if they are to escape. Their bid to board their shuttle fails when heavy weapons fire destroys the escape craft. Trooper Echo dies in the blast. The escapees then flee to the caves and call for rescue from the Jedi Temple on Coruscant.

Anakin Skywalker and the rest of his Jedi team have been overrun by the Separatist surprise attacks led by Riff Tamson while Prince Lee-Char and Ahsoka must evade capture on their own. Unable to summon more Republic aid, Yoda calls upon the help of the powerful and amphibious Gungan Grand Army, but whether they will be enough to stop the Separatist siege is uncertain. An incensed Tamson doubles his efforts in tracking down Prince Lee-Char, unleashing the reinforcements given to him by Count Dooku in an assault that churns the oceans.

When the leader of the Gungans, Boss Lyonie, is injured it's discovered there is an uncanny resemblance between the Boss and Jar Jar Binks. Binks must sway his people from rising against the Naboo and stopping a Separatist invasion led by General Grievous.

To locate the missing colonists, Anakin, Obi-Wan and Ahsoka go undercover to infiltrate the slavers on Zygerria. Anakin struggles with his emotions as a wily Zygerrian queen forces him to take questionable actions in order to carry out his mission.

The disguised Obi-Wan accompanies Cad Bane and Moralo Eval to Serenno, where they enlist in a brutal competition with other bounty hunters from around the galaxy to determine who will participate in a plot to kidnap the Chancellor.

Savage and Maul, now reunited, pursue Obi-Wan Kenobi in search of revenge, and the Jedi Knight finds himself forced to unite with a surprising ally to defend against the deadly siblings.

With Ahsoka captured by Hondo's pirates, the younglings work together to infiltrate the pirates' den, using their wits and courage to deceive Hondo Ohnaka and launch a daring rescue.

Using Duchess Satine as bait, Darth Maul lures Obi-Wan into a trap.

Anakin and Ahsoka investigate a deadly bombing at the Jedi Temple.

In the sterile laboratories of Kamino, the ailing clone trooper Tup and his friend ARC Trooper Fives are quarantined for examination following Tup's shocking murder of a Jedi Master. With the help of medical droid AZI-3, Fives is determined to get to the bottom of Tup's condition and uncovers a secret buried deep within the Republic's cloning program.

While on Scipio to fund a mercy mission, Padmé Amidala is called upon by an old friend, Rush Clovis, to help uncover corruption in the Banking Clan. They must evade the bounty hunter Embo to escape the planet with the incriminating information.

A Jedi mission finds a lightsaber belonging to the long-dead Master Sifo-Dyas, prompting Yoda, Obi-Wan Kenobi, and Anakin Skywalker to begin an investigation into his decade-old disappearance. This sparks Darth Sidious to order Darth Tyranus to clean up any loose ends that may lead the Jedi to discover the truth of the Sith conspiracy.

While Jedi Mace Windu and Obi-Wan Kenobi lead an attack against the Separatist forces on Anaxes, the Bad Batch and Anakin Skywalker infiltrate an enemy starship to ensure a Republic victory.