After accepting an invitation from a mysterious trainer, Ash, Misty and Brock meet Mewtwo, an artificially created Pokémon who wants to do battle.

Determined to prove its superiority, a bio-engineered Pokémon called Mewtwo lures Ash, Pikachu and others into a Pokemon match like none before.

Ash, Pikachu, and their friends come to a desert city by the sea. Here they meet the Mythical Pokémon Hoopa, which has the ability to summon things—including people and Pokémon—through its magic rings. After a scary incident, they learn of a story about a brave hero who stopped the rampage of a terrifying Pokémon long ago. Now, the threat that has been bottled up for years is in danger of breaking loose again.

In the underground Diamond Domain, where many Carbink live, the Mythical Pokémon Diancie serves as ruler. The Heart Diamond that sustains the land is beginning to fall apart, and Diancie is not yet strong enough to create a new one. While seeking help from the Legendary Pokémon Xerneas, Diancie encounters a group of thieves who want to take control of its diamond-producing power–and who awaken the Legendary Pokémon Yveltal from its cocoon in the process! Can Ash and his friends help Diancie discover its true power, stop Yveltal’s rampage, and save the Diamond Domain?

Ash meets the Mythical Pokémon Volcanion when it crashes down from the sky, creating a cloud of dust—and a mysterious force binds the two of them together! Volcanion despises humans and tries to get away, but it’s forced to drag Ash along as it continues its rescue mission. They arrive in a city of cogs and gears, where a corrupt official has stolen the ultimate invention: the Artificial Pokémon Magearna, created 500 years ago. He plans to use its mysterious power to take control of this mechanical kingdom! Can Ash and Volcanion work together to rescue Magearna? One of the greatest battles in Pokémon history is about to unfold!

When Molly Hale's sadness of her father's disappearance gets to her, she unknowingly uses the Unown to create her own dream world along with Entei, who she believes to be her father. When Entei kidnaps Ash's mother, Ash along with Misty & Brock invade the mansion looking for his mom and trying to stop the mysteries of Molly's Dream World and Entei!

In order to escape a greedy Pokémon hunter, Celebi must use the last of its energy to travel through time to the present day. Celebi brings along Sammy, a boy who had been trying to protect it. Along with Ash, Pikachu, and the rest of the gang, Sammy and Celebi must encounter an enemy far more advanced than the hunter, with the fate of the forest hanging in the balance.

When the creator of the world, Arceus, comes to pass judgement on humanity for the theft of the legendary Jewel of Life, Ash and his friends are sent back in time to possibly reverse the events that led to Arceus' vendetta.

Ash, Pikachu and his friends try and stop a pair of thieves hiding out in the canals and alleyways of Altomare, the age-old water capital. Joining the adventure are two new legendary Pokémon, a pair of siblings named Latias and Latios, who serve as peacekeepers and protectors of the Soul Dew - a priceless treasure with a mysterious power.

Ash and his friends must stop a greedy media mogul from using the shape-shifting Zoroark to capture the time-travelling Celebi.

Ash and friends (this time accompanied by newcomer Dawn) arrive at an idyllic village on their way to their next Pokemon contest, where chaos will soon erupt with the prophecy of two Pokemon Gods (Dialga and Palkia) and the arrival of a mysterious, seemingly deadly Pokemon named Darkrai, which has the power to distort space and time.

In the legendary past, before Poké Balls were invented, an aura-guiding hero Pokémon named Lucario sensed two groups of armies about to clash, and a threat of a massive war in front of Oldoran Castle in Kanto that would leave no survivors. He transferred this message to his master, the legendary hero Arlon, while he was being attacked by a violent group of Hellgar. During the battle, his sense of sight was lost and he was rendered unable to see. He used the detection of his Aura, and so with the offensive Wave Bomb, he eliminated them. Though by the threat, the queen of Rota, Lady Rin was resolute to die with her civilians, and so Arlon made a choice.

On their way through the Battle Frontier, Ash and friends meet up with a Pokémon Ranger who's mission is to deliever the egg of Manaphy to a temple on the ocean's floor. However, a greedy pirate wants the power of Manaphy to himself.

This is the story of a young self-reliant girl called Ai, who one day, moves into the Animal Village. While working at Tom Nook's shop "Nook's Cranny" she begins living her life away from her family. To begin with, she doesn't know left from right, but under the guidance of Mayor Tortimer, the angry but correct Mr. Resetti, and the wandering musician K.K. Slider among others, she is eventually accepted as a member of the village. One night as she walked along the beach, she finds a message in the bottle. It sets her off on a quest of planting pine trees around the village to fulfill a miracle on the eve of the Winter Festival

The Team Rocket leader, Giovanni, has found Mewtwo in a remote area of the Johto region. As Giovanni tries to re-capture Mewtwo, Ash and his friends are kidnapped by Domino, a new Team Rocket member, while trying to rescue Pikachu from Jessie and James. The Clone Pokemon are also captured and are then used as bait for Mewtwo. The situation then becomes a battle between the wills of Mewtwo and Giovanni; and Mewtwo also tries to discover if it and the clones have a purpose in life, even though they are products of science.

Deoxys, a Pokémon from outer space, terrorizes the high-tech city Ash Ketchum and his friends are visiting.

The story of "The Mastermind of Mirage Pokémon" centers on a Pokémon scientist who has developed a new Mirage System to resurrect extinct Pokémon. Satoshi, Haruka, Masato, and Takeshi show up at the Mirage Mansion for a demonstration of this new machine, only to witness the kidnapping of the scientist! Then a mysterious stranger appears and claims that the machine can actually create Pokémon without weaknesses. It’s up to Satoshi and company to preserve the natural balance of the Pokémon world.

The devious leader of Team Rocket Organization, Giovanni, has a fervent ambition to take control of the Pokémon world through both financial and military means. To achieve his military needs, he covets a Pokémon stronger and more adept than any other, a veritable living war weapon, so he enlists a scientist named Doctor Fuji to create this being from the DNA of the ancestor of all Pokémon and most powerful of Pokémon, Mew, which Fuji had found on a previous jungle expedition. Fuji accepts, for he is heavily into the prospect of cloning to create and restore life itself, because of his love for his deceased daughter, Amber.

The Ganglar have stolen the Lupin Collection, treasures left behind by the famous phantom thief, Arsène Lupin. Phantom thieves are fighting to take back what was lost. Police are fighting to protect the peace.