Here is the summary for MSB:
Mewtwo, who is newborn, opens his eyes in a laboratory, finding a dozen people in white clothes. They are scientists, who have given a birth to him, by genetically processing cells of Mew, the rarest Pokémon on the earth, to create the strongest Pokémon, able to speak a human language. Mewtwo's birth is not natural, but artificial. He recognises that, and is confused, and destroys the laboratory. Giovanni, the boss of the Team Rocket, takes him and makes him help with them capturing Pokémon. The mystery of his life is always in his mind, and he destroys the base of Team Rocket, too, to be alone.
Overlooking the sea in grassland on a cliff, Ash awaits Brock's stew ready on a table. Pikachu finds Togepi totter to the edge of the cliff, and panicked, rushes to help him. Togepi stops an inch from the edge, while Pikachu drops from it. The cliff is not deep at the side, to Pikachu's relief. Togepi chuckles to see him crawl up. A man challenges Ash. He cheers up, and accepts. After using Squirtle's Bubblebeam on the guy's Machamp, Bulbasaur's Solar Beam on his Donfan and Pikachu's Thunderbolt on his last three, Ash wins. Then suddenly he receives an invitation card, the message told by a beautiful woman in holography. The sender is unknown, but is just introduced by her the as strongest Pokemon trainer, and is to join a Pokemon league in the Pokemon castle in New Island. Ash decides to accept the invitation.
A storm outrages waves of the sea, so that it is impossible to launch a ship, as his party arrives at a port. They learn that there are many other trainers who were invited by the stranger, and that a female doctor of a Pokemon center is missing. Trainers try the raging sea, with the help of their Pokémon that can move in the water or fly. Unfortunately no one of Ash's party owns any that would be strong enough, and they don't know what to do. But a boat appears, and the two sailors offer a ride. Relieved Ash and the crew accept it. (He doesn't note Meowth at the head of the boat.) Ash is in high sprits in the boat, while Pikachu is scared of pitching. As a huge wave assaults it, the helmets which the sailors wore low over their eyes were swept away, revealing their faces. It's Jessie and James of Team Rocket! Ash is astonished. At that time another wave comes, and they are all thrown out of the boat into water. Misty quickly sends out Starmie, while Ash sends out Squirtle, and they cling on to either of them, letting the current take them where it goes.
Luckily, they make it to New Island. A moment later, Team Rocket does too. There are only three trainers that are there not inclusive - Sweet, Sorao, and Umio. The woman who appeared in the hologram greets them and tells them to call out all of their Pokémon. They are astonished when the host appears; who is Mewtwo, the Pokémon that is unknown to them yet. Noting himself as a trainer, two of the trainers become outraged, because he is only a Pokémon. The woman's condition suddenly changes, and she collapses. Brock rushes to her and holds her in his arms, finding himself looking at the female doctor who they learned was missing. Trainers send some of their Pokémon to battle Mewtwo, but he beats them easily. Then he takes the trainers and Pokémon to a league field that apparently he constructed.
Team Rocket, who were not invited, make their own way into the castle. They are followed by Mew, of which they are unaware and find themselves in a lab. They find huge tubes there. Some of them contain a Pokémon sleeping. As they wonder around, Meowth is captured by a pair of mechanical arms and put on a conveyer belt. He struggles to escape with the help of Jessie and James while the arms pull three hairs out of his tail. Meowth manages to escape, and a computer turns on describing information about Meowth's genes. Suddenly, a clone of Meowth appears in one of the empty tubes. Mewtwo, highly intelligent, studies there and successfully creates clones of Pokemon, making them stronger than the original. And they are not just copies they have lives.
Venusaur, Charizard, and Blastoise come out of tubes, then go to the league field, called by Mewtwo by telepathy. Mewtwo being Psychic and all knows that Sorao owns a Venusaur, Sweet raises a Blastoise, and Ash has a Charizard. He is there to prove that his copies are superior to the originals. It is his revenge for human beings that have given a birth to him, making use of him. The clones set to battle, showing that they are incredibly strong. They conquer the originals, disappointing the invited trainers.
Mewtwo's revenge doesn't finish there however. Psychic balls of energy fly across the field, each aiming at the original Pokémon. Mewtwo's balls capture them one after another, now leaving Pikachu. A dozen balls are sent to him. He runs, shooting electricity, frightened. Ash desperately tries to save him. But a ball captures Pikachu. Ash runs after it runs after it, but it flies away. Team Rocket are still in the lab and the balls coming zooming in. The hands take each and the computer analyses the gene. Each time, a perfect copy is created. Pikachu's ball arrives, and Ash follows.
As the mechanics grab Pikachu, so does Ash. Pulling with all his might, he breaks the machine breaks into sparks and it spits Pokémon out. Pikachu is safe, and Ash hugs him tight in his arms. Clones are summoned by Mewtwo and go to the league field. Satoshi and Pikachu follow them with originals. Then they see a small, white monster there. It was Mew. Mewtwo's mother
the original
Mewtwo shakes his whole body with mixed feelings, dread and delight that he would fight his original to prove HE is superior. As they fight, other Pokémon also battle with their copies hand-to-hand. Pikachu's copy appears, too. He glares at the original Pikachu, and goes after him. Pikachu doesn't resist, as he doesn't want to battle a himself in a context. The copy shouts at him, "pika, pikachu! (Fight me!)" Pikachu shakes his head, refusing to counter. Tears well up to the copy's eyes, but he cannot stop himself while Mew fights Mewtwo. Crying, the copy continues to beat Pikachu. Finally the copy is exhausted and collapses. Pikachu moves towards him and holds him tenderly.
Ash, who is now disgusted by this, cannot stand to see them battle any longer. He dashes toward the spot Mew and Mewtwo fight, crying, "Don't! Don't fight any longer!" Just then, Mew and Mewtwo shoot out powerful psychic balls of energy. Hitting him he screams, and collapses to the ground. All the Pokémon, including Mew and Mewtwo, freeze and just watch him. "Pikapi!" Pikachu goes up to him, looking into his face. His body starts to stiffen right before Pikachu's eyes. Pikachu wonders at first what has actually happened, looking at his best friend lying on the floor not moving. Pikachu shocks him, hoping it may revive him. But Ash remains still. Pikachu tries once more, then over and over. When he becomes too tired to shoot a beam anymore, Ash still lies still on the ground. Tears well up to Pikachu's eyes roll down his cheeks, and drop to the ground, and are quickly filtered into the soil. Other originals and clones begin to weep. Their tears wet the ground, and are conveyed to Satoshi through the soil. His body softens slowly, and he finally recovers, moving ever so slightly. Pikachu hugs him, and Ash hugs back.
Mewtwo calls the clones by telepathy, and they float up. He can now believe in his life, which is valuable, and is leaving to look for the place where they can all live. Ash, Pikachu, and the rest watch them flying away, now feeling for them. When Ash fully recovers, he walks to the port with his friends. The other trainers are there too. No one remembers what happened in the island. The storm is over a moment later, and the sea recovers the peace, its surface brightening in the sunlight.
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