| No. overall | No. in season | Title | Directed by | Written by | Original release date | Prod. code | US viewers (millions) |
| 1 | 1 | "Ambush" | Dave Bullock | Steven Melching | October 3, 2008 (2008-10-03) | 1 | 3 |
| Jedi Master Yoda must face off against Count Dooku's dreaded assassin Asajj Ventress and her massive droid army to prove the Jedi are strong enough to protect a strategic planet and forge a treaty for the Republic. Ventress fails against Yoda, so Dooku tells Ventress to kill the king of the planet, who wants to sign the treaty with the Republic. Yo |
| 2 | 2 | "Rising Malevolence" | Dave Filoni | Steven Melching | October 3, 2008 (2008-10-03) | 1 | 3 |
| An attack by a devastating new Separatist weapon—the powerful starship Malevolence—leaves Jedi Master Plo Koon and his clone troopers struggling to survive until Anakin and Ahsoka can find them. |
| 3 | 3 | "Shadow of Malevolence" | Brian Kalin O'Connell | Steven Melching | October 10, 2008 (2008-10-10) | 1 | 2 |
| With the help of his Padawan, Ahsoka, and Jedi Master Plo Koon, Anakin uses new long-range Y-wing bombers to lead a bold strike on General Grievous's warship, the Malevolence, and its destructive weapon. |
| 4 | 4 | "Destroy Malevolence" | Brian Kalin O'Connell | Steven Melching | October 17, 2008 (2008-10-17) | 1 | N/A |
| 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. |
| 5 | 5 | "Rookies" | Justin Ridge | Steven Melching | October 24, 2008 (2008-10-24) | 1 | N/A |
| Alone on a distant outpost, clone officers Rex and Cody must inspire their rookie unit to believe in themselves to stave off a droid commando invasion. |
| 6 | 6 | "Downfall of a Droid" | Rob Coleman | George Krstic | November 7, 2008 (2008-11-07) | 1 | N/A |
| R2-D2 is lost during a fierce space battle—and Anakin must find him before the Separatists discover the Jedi military secrets locked in his memory banks. |
| 7 | 7 | "Duel of the Droids" | Rob Coleman | Kevin Campbell & Henry Gilroy | November 14, 2008 (2008-11-14) | 1 | N/A |
| Anakin, Ahsoka, and replacement droid R3-S6 embark on a dual rescue/sabotage mission when they discover that R2-D2 is being held at General Grievous's secret enemy listening post, Skytop Station. |
| 8 | 8 | "Bombad Jedi" | Jesse Yeh | Kevin Rubio & Steven Melching & Henry Gilroy | November 21, 2008 (2008-11-21) | 1 | 2 |
| On a diplomatic mission to the planet Rodia, Padmé discovers that her old friend and fellow Republic senator Onaconda Farr has allied his planet with the Separatists. In exchange for food and resources for his people, Onaconda captures Padmé and promises to deliver her to Nute Gunray. Sensing that Padmé is in trouble, Jar Jar Binks disguises himsel |
| 9 | 9 | "Cloak of Darkness" | Dave Filoni | Paul Dini | December 5, 2008 (2008-12-05) | 1 | 1 |
| Ahsoka and Jedi Master Luminara Unduli 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 pri |
| 10 | 10 | "Lair of Grievous" | Atsushi Takeuchi | Henry Gilroy | December 12, 2008 (2008-12-12) | 1 | 2 |
| 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 that it is the trap-laden lair of General Grievous. Learning that Count Dooku has led the Jedi t |
| 11 | 11 | "Dooku Captured" | Jesse Yeh | Julie Siege | January 2, 2009 (2009-01-02) | 1 | N/A |
| During their own attempt to kidnap Dooku, Anakin and Obi-Wan discover that the Sith lord has already been captured by pirates. Hondo Ohnaka and his gang of pirates hold Dooku captive in their den on Florrum, and hold him for ransom. It is up to Anakin and Obi-Wan to see if the offer is too good to be true. |
| 12 | 12 | "The Gungan General" | Justin Ridge | Julie Siege | January 9, 2009 (2009-01-09) | 1 | 2 |
| Anakin and Obi-Wan have been duped and are being held for ransom, along with Count Dooku, by the pirate chief Hondo Ohnaka and his second-in-command, Turk Falso. While Anakin, Obi-Wan, and Dooku unsuccessfully attempt to escape, the Republic sends the ransom via a special envoy, including Representative Jar Jar Binks. When Falso tries to steal the |
| 13 | 13 | "Jedi Crash" | Rob Coleman | Katie Lucas | January 16, 2009 (2009-01-16) | 1 | 2 |
| Anakin and Ahsoka arrive at a pitched sky battle to help besieged Jedi General Aayla Secura. Anakin is gravely injured in the fight. Aayla and Ahsoka, along with the now-wounded Anakin, Rex, and the surviving clones, crash land on the uncharted grass-covered planet Maridun. Forced to leave Anakin behind in order to save him, Aayla teaches Ahsoka wh |
| 14 | 14 | "Defenders of Peace" | Steward Lee | Bill Canterbury | January 23, 2009 (2009-01-23) | 1 | 2 |
| Tee Watt Kaa refuses to shelter the Jedi from arriving Separatist forces, fearing that such an action would unnecessarily bring his neutral people into the war. Ahsoka, Aayla, the wounded Anakin, and the rest of the clones respect their wishes as they do not want to jeopardize the village with their presence, so they have to retreat into the wilds |
| 15 | 15 | "Trespass" | Brian Kalin O'Connell | Steven Melching | January 30, 2009 (2009-01-30) | 1 | 2 |
| Arriving on the desolate ice world of Orto Plutonia, Anakin and Obi-Wan 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. Fi |
| 16 | 16 | "The Hidden Enemy" | Steward Lee | Drew Z. Greenberg | February 6, 2009 (2009-02-06) | 2 | 2 |
| Anakin and Obi-Wan lead Republic forces in an attempt to defeat the droid armies and free the planet of Christophsis from the Separatist siege. When the Republic is ambushed and forced to retreat, it becomes clear that someone in their midst has set them up. The Jedi believe this infiltration is a Sith-backed operation and go behind enemy lines to |
| 17 | 17 | "Blue Shadow Virus" | Giancarlo Volpe | Craig Titley | February 13, 2009 (2009-02-13) | 1 | 2 |
| The Republic discovers a Separatist bio-weapon lab hidden on the planet of Naboo. Rather than wait for help, Padmé explores the lab with Jar Jar. Anakin, Ahsoka, Rex, and Obi-Wan arrive and follow after her. They find that the Senator is being held captive by the sinister Dr. Nuvo Vindi. The mad scientist has been developing a lethal virus for the |
| 18 | 18 | "Mystery of a Thousand Moons" | Jesse Yeh | Brian Larsen | February 13, 2009 (2009-02-13) | 2 | 2 |
| Even though the lab has been shut down, Dr. Vindi manages to activate the dreaded Blue Shadow Virus, infecting Ahsoka, Padmé, and many clone troopers. The plague is fatal within 48 hours. Anakin and Obi-Wan must travel to the mysterious planet Iego to secure the only known antidote to the sickness. They arrive to find its population living in fear |
| 19 | 19 | "Storm Over Ryloth" | Brian Kalin O'Connell | George Krstic & Scott Murphy & Henry Gilroy | February 27, 2009 (2009-02-27) | 1 | 2 |
| 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 is emotionally rocked |
| 20 | 20 | "Innocents of Ryloth" | Justin Ridge | Randy Stradley & Henry Gilroy | March 6, 2009 (2009-03-06) | 1 | 2 |
| With the space blockade around Ryloth destroyed, Obi-Wan must lead a small clone force into a droid-occupied town to sabotage their anti-aircraft guns. Obi-Wan's mission is complicated when he learns the town's inhabitants are being used as living shields. A pair of clones in his platoon forges an unlikely friendship with a refugee Twi'lek girl, Nu |
| 21 | 21 | "Liberty on Ryloth" | Rob Coleman | Henry Gilroy | March 13, 2009 (2009-03-13) | 1 | 3 |
| The battle for Ryloth rages as the Republic attempts to drive off the occupying droid army led by Techno Union foreman Wat Tambor. With his forces stretched thin, Mace Windu must convince Twi'lek freedom fighter Cham Syndulla to help him save the capital city from the droids' destruction. Initially, the Twi'lek hero is hesitant to aid Mace, but ult |
| 22 | 22 | "Hostage Crisis" | Giancarlo Volpe | Eoghan Mahony | March 20, 2009 (2009-03-20) | 2 | 3 |
| In an attempt to force the release of the crime lord Ziro the Hutt from prison, bounty hunters seize control of the Senate Building and hold members of the Senate hostage. Cad Bane, the leader of the operation, with the help of bounty hunter Aurra Sing, issues his demands to Chancellor Palpatine, who has no choice but to meet his request. Unbeknown |