Episode 1:
Start off with Obi Wan becoming a Jedi knight and taking on a teenage Anakin as his first apprentice. You can keep most everything else that happened, but its Obi Wan and Anakin that we see in the beginning trying to force a settlement with the Trade Federation. Anakin meets Padme and the two instantly hit it off.
They still make it to Tatooine, his mother is still there, but she was never a slave. That whole "chosen one" and "virgin got pregnant", holy bible ripoff BS is gone.( I REALLY hated that part) Chlee Lars and Schmi were Anakins parents. Owen was his brother. The two of them have always been at odds because Anakin chose to become a Jedi rather than stay and help with the family business. After Anakin wins the pod race, he bids his family goodbye again. Rest stays the same except the final battle. Anakin is helping Gungans fight while Obi wan and his old master Qui Gon take on Darth Maul. Maul kills Qui Gon and escapes while Obi wan is trapped. (Mauls defeat was SO lame. He just stands and watches Obi Wan leap over him like as if he's never seen that before.) Maul does not get defeated until Episode 3.
Episode 2:
Movie opens with the Clone Wars already going on. Anakin and Padme have married in secret. Count Dooku is not a pawn of Darth Sidous, but a for real political idealist who leads the separatist movement. Darth Sidous is furious and sends Darth Maul to track Dooku down, who is always a few steps ahead. There is no hints of any kind that Palpatine is the Sith lord. Only Star Wars nerds know the truth. Meanwhile, we get to see the other heroes of the Jedi that never got real screen time. The friendship between Obi Wan and Ankin deepens further when Obi Wan as a member of the jedi council proposes that Anakin is ready for an apprentice of his own. We meet Asoka, who is more like we see in the current series than the way she was introduced in the animated movie. Anakin starts having the bad dreams, Padme tells Anakin that his mother has been kidnapped and they both go back to Tattoine. Same events happen, except we see Owen Lars listening in to the conversation Anakin has with Padme. The film ends with Maul cutting Dooku down and stealing the Death Star plans. The world celebrates because the Clone Wars have ended.
Episode 3:
Film opens with the Senate demanding that Palpatine do as he promised and lay down his emergency powers. He of course refuses. Anakin has the nightmares about Padme, who is pregnant with twins. Maul shows up at Anakin and Padme's secret home. Maul has the upper hand. but when he moves to strike Padme, Anakin defeats him using hate and anger. After it is over ,we see Anakin feel satisfied from the rush that has come over him. He wants more. The deleted scenes with the Senators upset over the Chancellors powers are put back in. The Jedi arrive to force Palpatine's hand, but Anakin intervenes. Seeing the Jedi as traitors, he attacks and cuts down the whole group with the help of a now revealed Darth Sidious. Order 66 is given, Palpatine announces that the Republic is now an Empire and clone troopers arrive to execute all dissenters . Bail Organa, Mon Mothma and Padme escape along with some others. Meanwhile, Anakin/Vader is slaughtering all Jedi in the Temple. Knowing what Anakin has done, Padme confronts him on Mustafar and says that she can't live with him anymore and is divorcing him. He chokes her, and the rest plays out like it did except a last shot of the surviving senators forming the rebel alliance.
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Episode 6:
Replace the Ewoks with Wookies on Kashyyk. Drop the Luke/ Leia brother and sister angle.
