Ten years after initially meeting, Anakin Skywalker shares a forbidden romance with Padmé Amidala, while Obi-wan Kenobi investigates an assassination attempt on the Senator and discovers a secret clone army crafted for the Jedi.
Ten years after the invasion of Naboo, the Galactic Republic is facing a Separatist movement and the former queen and now Senator Padmé Amidala travels to Coruscant to vote on a project to create an army to help the Jedi to protect the Republic. Upon arrival, she escapes from an attempt to kill her, and Obi-Wan Kenobi and his Padawan Anakin Skywalker are assigned to protect her. They chase the shape-shifter Zam Wessell but she is killed by a poisoned dart before revealing who hired her. The Jedi Council assigns Obi-Wan Kenobi to discover who has tried to kill Amidala and Anakin to protect her in Naboo. Obi-Wan discovers that the dart is from the planet Kamino, and he heads to the remote planet. He finds an army of clones that has been under production for years for the Republic and that the bounty hunter Jango Fett was the matrix for the clones. Meanwhile Anakin and Amidala fall in love with each other, and he has nightmarish visions of his mother. They travel to his home planet, Tatooine, to see his mother, and he discovers that she has been abducted by Tusken Raiders. Anakin finds his mother dying, and he kills all the Tusken tribe, including the women and children. Obi-Wan follows Jango Fett to the planet Geonosis where he discovers who is behind the Separatist movement. He transmits his discoveries to Anakin since he cannot reach the Jedi Council. Who is the leader of the Separatist movement? Will Anakin receive Obi-Wan's message? And will the secret love between Anakin and Amidala succeed?
Ten years after the 'Phantom Menace' threatened the planet Naboo, Padmé Amidala is now a Senator representing her homeworld. A faction of political separatists, led by Count Dooku, attempts to assassinate her. There are not enough Jedi to defend the Republic against the threat, so Chancellor Palpatine enlists the aid of Jango Fett, who promises that his army of clones will handle the situation. Meanwhile, Obi-Wan Kenobi continues to train the young Jedi Anakin Skywalker, who fears that the Jedi code will forbid his growing romance with Amidala.
Jedi Knights Obi-Wan Kenobi and Anakin Skywalker discover there is more than meets the eye behind an assassination attempt on Naboo Senator Padmé Amidala's life. Meanwhile, a Sith Lord orchestrates events between the forces of good and evil, all the while waiting to play the final move that will ensure him control of the galaxy.
Set ten years after the events in "The Phantom Menace". After an assassination attempt on the life of Senator Padmé Amidala, Jedi Knight Obi-Wan Kenobi and his Padawan learner Anakin Skywalker are sent to investigate. After tracking down the assassin, she is killed before any information can be driven out of her. The two Jedi are then sent on two different missions: Anakin is sent to Naboo with Padmé and Obi-Wan is sent to the planet of Kamino where he will investigate the assassination attempts. Little does he know, he is investigating some of the biggest events of the Star Wars saga, as he finds out that there is a connection between the assassination attempts and a separatist movement led by a former Jedi against the Republic. The Galactic Republic finds itself at the brink of a civil war.
As now-Senator Padmé Amidala returns to Coruscant to vote on an important Senatorial matter, an assassination attempt on her life prompts the Jedi Council to send Jedi Knight Obi-Wan Kenobi and his Padawan Anakin Skywalker to protect her and find out who the assassin is. As this is happening, a rogue Jedi named Count Dooku leads separatists on Geonosis to rebel against the Senate. Supreme Chancellor Palpatine moves for a vote for a Republic Army to protect the Republic, as there has not been a full-scale war since the formation of the Republic. As Obi-Wan's investigations lead him to Kamino, he finds a massive clone army being produced, with a bounty hunter - the last of the Mandalorians - named Jango Fett as the master clone. As he chases the elusive bounty hunter, Jango (and his cloned son Boba) leads Obi Wan to Geonosis, where he meets Count Dooku and finds a startling revelation about the former Jedi. As Anakin is left behind to protect Padmé, his feelings for her grow into something more than friendship. From Naboo to Tatooine, it grows into love for her. But when a tragedy strikes Anakin's life, he begins slipping away from the Light Side of the Force, and perhaps from the Force itself.
- The opening crawl reveals that the Galactic Republic is in crisis. A separatist movement, led by former Jedi Master Count Dooku (Christopher Lee), has threatened the peace. Senator Padmé Amidala (Natalie Portman), former Queen of Naboo, returns to the Galactic Senate to vote against the creation of an Army of the Republic. Upon her arrival at Coruscant, she narrowly escapes an assassination attempt, a bomb placed on her ship. As a result, Chancellor Palpatine (Ian McDiarmid) requests that she be put under the protection of Jedi Knight Obi-Wan Kenobi (Ewan McGregor) and his apprentice, Anakin Skywalker (Hayden Christensen).
That night, Zam Wesell, a bounty hunter, makes another attempt on Padmé's life, but Wesell is herself killed (to silence her) just after Obi-Wan and Anakin capture her. The Jedi Council sends Obi-Wan to investigate the murder, while Anakin is to protect Padmé by escorting her to Naboo. Anakin welcomes the opportunity; he often becomes angry at and frustrated with Obi-Wan's criticism, and is glad to have an opportunity to be alone with Padmé. Representative Jar Jar Binks (Ahmed Best) assumes the Senator's duties in her absence.
The investigation leads Obi-Wan to the planet of Kamino, where he discovers that a secret clone army is being developed for the Republic. The Kaminoan Prime Minister tells him that this army was ordered some ten years ago by a Jedi Master named Sifo-Dyas, whom the Jedi Council believes to have been killed around the same time. A bounty hunter named Jango Fett (Temuera Morrison) had been hired to be the template for the clones. Obi-Wan meets Jango on Kamino, and believes that he is the killer he has been tracking. After unsuccessfully trying to capture Jango Fett, Obi-Wan places a tracking device on his ship and follows him to the planet of Geonosis.
Meanwhile, Anakin and Padmé spend time together on Naboo, and Anakin reveals his love for her. Padmé resists, explaining that it would be impossible for the two of them to be together; she is a respected Senator, and the Jedi Code forbids marriage or any other form of attachment. Anakin is soon troubled by dreams in which his mother, Shmi (Pernilla August), is in danger and dying. He asks Padmé to accompany him to Tatooine. Upon arriving, Anakin learns that his mother was sold by his former master to a moister farmer who lives outside of Mos Esley. Anakin and Padame arrive at the Lars farm where he meets his stepbrother Owen and his fiancee Beru as well as his stepfather Kleg Lars whom married Shmi. Anakin learns that his mother had been kidnapped one month earlier by local Tusken Raiders. Anakin tracks her to a Tusken camp, where he finds her in poor condition, and within moments she dies in his arms. In a fit of rage, he slaughters the entire Tusken community. Anakin brings his mother's body back to her home, where her funeral is held.
On Geonosis, Obi-Wan learns that Count Dooku and Trade Federation Vicroy Nute Gunray have built a new droid army and that Gunray has ordered the assassination of Padmé. Just before being captured, Obi-Wan relays this information to Anakin so that he can relay it to the Jedi Council on Coruscant. Once the Jedi learn of Dooku's army, Jedi Master Mace Windu (Samuel L. Jackson) leads a team to Geonosis. Meanwhile, Jar Jar Binks calls for Chancellor Palpatine to be given emergency powers, with which he can call the recently discovered clone army into battle.
Back on Geonosis, the manipulative Count Dooku tries to persuade Obi-Wan to join him, warning him that the Senate is secretly under the control of a mysterious Sith Lord by the name of Darth Sidious. Obi-Wan refuses to believe him, saying that the Jedi would have known if that was the case. Upon learning that Obi-Wan is in trouble, Anakin and Padmé go to Geonosis, but they are captured during their infiltration of a droid factory, despite Anakin's valiant efforts.
They join Obi-Wan in an arena-like complex where three huge creatures are unleashed on them for their execution. During their struggle, Mace Windu arrives with the Jedi, and they battle the droid army. Just as defeat for the Jedi seems imminent, Yoda (Frank Oz) arrives with the Republic's new clone army.
The Battle of Geonosis. A large battle erupts between the Republic's clone forces and the Separatists' droid army. Count Dooku attempts to escape, but Obi-Wan and Anakin track him to a secret hangar, where they engage him in combat. Dooku quickly injures Obi-Wan and cuts off Anakin's right arm. Yoda arrives and engages Dooku in lightsaber combat. Dooku, realizing he may be outmatched, causes a support pylon to nearly fall on Anakin and Obi-Wan; Yoda uses the Force to stop this, allowing Dooku to escape with the plans for a new weapon, the Death Star. In a desolate industrial district on Coruscant, he meets with his master, Darth Sidious, who is pleased that the war has begun "as planned". Dooku is revealed to be the apprentice Sith Lord, Darth Tyranus.
On Coruscant, Obi-Wan informs the Jedi Council of Dooku's warning that Darth Sidious is controlling the Senate. All of them, including Yoda, are surprisingly hesitant to believe this, stating that the Dark Side is capable of creating fear and mistrust. Yoda and Windu also agree that the Dark Side is now clouding everything, and that they should closely monitor the Senate.
Meanwhile, Palpatine oversees the launching of a massive clone trooper force. The great and terrible Clone Wars have begin.
In the final scene set on Naboo, Anakin (with a new mechanical hand) and Padmé hold a secret wedding, to which only the droids C-3PO (Anthony Daniels) and R2-D2 (Kenny Baker) are witnesses.