After Ansem is saved from a group of Nobodies at The World That Never Was by King Mickey, the two travel together for a short time, and Ansem explains the purpose of the machine that he has with him; he means to use it to convert the Kingdom Hearts created by Organization XIII (with the unwitting help of Sora, Donald, and Goofy) into data so that it will not harm anyone else.
However, Kingdom Hearts proves to be too much for the Encoder to handle, and the machine begins to overload while Ansem futilely attempts to contain it. In the end, Sora, Donald, Goofy, Mickey, Riku, and Kairi attempt to stop him from doing what he plans to do, but Ansem begs them not to, he gives Riku and Mickey some parting words, he tells Sora that the rest is up to him, and sincerely apologizes to Roxas for what he had done to him through Sora. Xemnas appears afterwards and after conversing with his former apprentice, the machine self-destructs, sending Ansem to the Realm of Darkness and destroying most of his memories.
However, the machine also undoes the majority of the Organization's work on Kingdom Hearts and completely purifies Riku of the presence of Ansem, Seeker of Darkness, returning him to his normal form. But by doing this, it caused a massive birth of Heartless as the hearts touched the ground down in the city below, and other Nobodies arrived to try and catch the falling hearts.
| Kingdom Hearts II
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| Characters
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| Party members
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Roxas - Sora - Donald Duck - Goofy
Fa Mulan - Beast - Auron - Jack Sparrow - Aladdin - Jack Skellington - Simba - Tron - Riku
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| Summons
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| Chicken Little - Genie - Stitch - Peter Pan
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| Antagonists
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Organization XIII
Xemnas - Xigbar - Xaldin - Saïx - Axel - Demyx - Luxord
Villains
Maleficent - Pete - Hades - Ursula - Hector Barbossa - Jafar - Oogie Boogie - Scar
Shan-Yu - Master Control Program - Sark
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| Non-playable characters
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| Abu - Aerith - Ansem the Wise - Ariel - Ariel's Sisters - Auron - Bathtub - Belle - Biggs - Captain Pete - Carpet - Cave of Wonders Guardian - Cerberus - Chien Po, Ling, and Yao - Chip - Chip and Dale - Christmas Elves - Cid - Clara Cluck - Clarabelle Cow - Cloud - Cogsworth - Daisy Duck - Dark Figure - Dr. Finkelstein - Eeyore - Elizabeth Swann - Enchanted Brooms - Flora, Fauna, and Merryweather - Flotsam and Jetsam - Flounder - Fujin - Gopher - Gullwings - Hayabusa - Hayner - Hercules - Horace Horsecollar - Hostile Program - Huey, Dewey, and Louie - Hydra - Iago - Jasmine - Jessie - Jiminy Cricket - Kairi - Kanga - King Triton - Li Shang - Lock, Shock, and Barrel - Lumière - Maleficent's Raven - Megara - Merlin - Mickey Mouse - Minnie Mouse - Moogles - Mrs. Potts - Mufasa - Mushu - Nala - Naminé - Olette - Owl - Pain and Panic - Pegasus - Pence - Philoctetes - Piglet - Pluto - Prince Eric - Pumbaa - Rabbit - Rafiki - Raijin - Reindeer - Rock Titan - Roo - Sally - Santa Claus - Scrooge McDuck - Sebastian - Seifer - Selphie - Sephiroth - Setzer - Shenzi, Banzai, and Ed - Simba and Nala's cub - Squall Leonhart - Terra-Xehanort - The Emperor - The Experiment - The Ghost of Scar - The Mayor - The Peddler - Tifa - Tigger - Timon - Tinker Bell - Undead Pirates - Vivi - Wallace - Wantz - Wardrobe - William Turner - Winnie the Pooh - Wedge - Yen Sid - Yuffie - Zero
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| Locations
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| Worlds
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| Twilight Town - Destiny Islands - Hollow Bastion/Radiant Garden - The Land of Dragons - Beast's Castle - 100 Acre Wood - Olympus Coliseum - Disney Castle - Timeless River - Atlantica - Port Royal - Agrabah - Halloween Town - Pride Lands - Space Paranoids - The World That Never Was - End of Sea
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| Places
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| The Other Twilight Town - Dive to the Heart - Mysterious Tower - Kingdom Hearts
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| Terms
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| Cornerstone of Light - Drive Form - Gate - Hollow Bastion Restoration Committee - Kairi's Letter - Keyblade - Kingdom Hearts Encoder - Organization XIII - Princesses of Heart - Reaction Command - Secret Ansem Report - Sidecar Glider - Skateboard - The End - Twilight Town Disciplinary Committee
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| Music
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| Kingdom Hearts II Original Soundtrack - Kingdom Hearts Original Soundtrack Complete - Sanctuary
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| Archives
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| Accessories - Artwork - Bosses - Enemies - Items - Keyblades - Other Weapons - Songs - Removed content
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