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Plot Synopsis

The story begins in the Pokémon Lab, near Cinnabar Island
(as seen in the game, the burnt out old lab). There the scientists,
after finding DNA from the rarest Pokémon known to have once
existed, Mew, have cloned the Pokémon, but not before genetically
enhancing the creature by altering its genetic code by adding the
best traits of all Pokémon types.
When the creature, named Mewtwo by the scientists, awakes, it realizes
that it's 'parents' don't truly care for it as he is only an 'experiment',
only about their own greatness. In a fit of rage, Mewtwo murders
it creators and destroys the lab, but not before one of the scientists
records a message telling who ever may find it what has happened.
As Mewtwo stands in the destruction it has created, a helicopter
lands on the island. Giovanni, the notorious Team Rocket boss,
emerges from the helicopter and asks Mewtwo to join him as his partner
in his quest to one day take over the world.
Mewtwo wonders whether this human is any different to those who
created it, but his wish to control the world is shared by this
human, so he decides to join Giovanni. Giovanni brings Mewtwo back
to Team Rocket HQ, and has a mechanic suit made for him to help
Mewtwo to control it's powers. To help Mewtwo to learn how
control his power, Giovanni makes the Pokémon fight, and
at one point tests him in his gym in Viridian against a young Pokémon
trainer named Gary ('Battle of the Badge'). It beats every
opponent.
But after these battles, the alliance splits when Mewtwo realizes
that Giovanni believes that a Pokémon like him can never
be the equal of a human. Mewtwo destroys the HQ, and leaves,
vowing to seek revenge on the human race and to prove that Pokémon
are better than humans.
Meanwhile, on a cliff somewhere, Ash battles another trainer while
waiting for Brock to finish cooking dinner. After the battle,
Mewtwo watches the trio. Later, a Dragonite lands near to
the trio and gives Ash a same box. From the box the hologram
of a beautiful, and familiar, woman appears and invites the three
to a party held by her master, the greatest Pokémon trainer
in the world. They decide to accept the invitation and
tick the yes box on the invitation.
Jessie and James, who were watching the three, decide to crash
the party. Ash, Misty and Brock go to the port where they can get
a ferry to the island that is the home of this trainer, but a storm
has erupted, created by Mewtwo, meaning that all ferries have been
cancelled. Officer Jenny warns the other Pokémon trainers,
who have also been invited, not to try and cross the sea.
The three also find a poster saying that the local Nurse Joy has
disappeared and is feared to have been kidnapped.
Far away, deep in some waters, Mew emerges from it's bubble, and
rises into the sky and flies away. It has a job to do. Anxious
to get to the island, Ash tries to think of a safe way to cross
the sea. A boat, with two vikings onboard comes up to them
and offers them a ride. Despite to get to the island they
agree. But the storms rock the boat and the furs of the vikings
are washed off, revealing their true identities - Team Rocket.
The boat is then knocked again by a wave pushing everyone into
the sea. Luckily by using their water Pokémon, they
are able to reach the island. When they arrive, they are welcomed
by the same woman as was in the invitation, and Brock makes a disturbing
realization - it was Nurse Joy!
She brings them into the castle, and there in the main room are
several other trainers that Ash, Misty, and Brock recognize from
the port. They have also braved the storm to reach the island.
After the trainers introduce themselves, a noise in the background
catches their attention. A figure floats down a tube and into
their sight. It was a Pokémon. Then the woman
speaks and announces something that shocks everyone present.
The trainers can't believe this. How can a Pokémon
be a trainer as well? Mewtwo attacks one of the doubtful trainers,
and he attacks back with one of his Pokémon, but he is easily
over-powered by Mewtwo. Mewtwo also releases his control on
Nurse Joy, saying that he no longer needs her.
Jessie, James and Meowth reach the island and enter the castle
through a sewer, followed by a curious Mew. They find themselves
in a room filled with computers and strange machines, linked by
tubes that look like tendrils. In these tubes they discover
several Pokémon - a Venusaur, a Blastoise and a Charizard-
but they look different to normal Pokémon.
They then happen upon a message made by a scientist, telling of
the creation of Mewtwo. In the background of the message,
they can here destruction, even over the static. They also
knock the cloning machine on. Two hands grab Meowth and try
to drag him into the machine, but he is saved by Jessie and James,
but the machine holds on and pull three hairs from Meowth.
The machine then extracts Meowth's DNA, and in one the tubes, and
exact copy of the feline. Meowth has been cloned!
Mewtwo tells the trainers that he will never serve humans and
that they, and the other Pokémon who have let themselves
become slaves to the humans are no good and need to be destroyed.
Pikachu disagrees, saying that he is with Ash because he wants to
be, but Mewtwo tells him that he is weak if he needs to be with
humans.
Ash challenges Mewtwo to see if it truly is the most powerful Pokémon
in existence. And below, where Team Rocket are, the cloned
Pokémon awake and leave the lab, followed by Mew, who flies
right past Team Rocket. The clones rise on platforms to meet
Ash and the other trainers who challenge them with their own original
Pokémon of each of the three types. Mewtwo reveals
his own Pokémon battle gym.
The battle does not last long though. Ash's and the other
two trainers are easily beaten. Mewtwo's Pokémon have
been genetically enhanced as it has been. Now Mewtwo claims
it prize - everyone's Pokémon! Three Poke balls, coloured
black and silver rather than the usual red and white, appeared in
the air and captured the three Pokémon that had just battled
and lost, including Ash's Charizard. Ash, after trying to
oppose Mewtwo, is knocked to the ground by a psychic blast, and
then more poké balls appeared. Even though the Pokémon
fought them, the other Pokémon were captured just like the
first three.
Ash, having an idea, told his Pokémon to get into their
own poké balls, but it was no use. Mewtwo's poké
balls still were able to capture them. The trainers tried
to escape, but before they could get to the entrance, Mewtwo captured
both Misty's and Brock's Pokémon. The poké balls
then charged Pikachu. Pikachu ran from them up a spiral staircase
in the main room, but they followed, and were gaining on him.
Ash ran after his Pokémon, hoping that he could help it.
He also scaled the staircase, but lost his footing and fell.
Luckily he grabbed onto the railing.
Meanwhile, Pikachu was keeping the poké balls away from
him with his electric attacks, but this only stopped them for a
second a time. Ash looked up towards Pikachu and saw him surrounded
by Mewtwo's poké balls. Pikachu also loses his grip
on the staircase and falls, pursued by the poké balls.
Ash, seeing Pikachu fall past him, let go of the railing and tried
to grab Pikachu but doesn't manage to catch him. Then the poké
balls gained on Pikachu and captured him. Ash managed to grab
onto the ball and landed in a pool of water. But his grip
slipped and the ball travelled down through a hole in the ground,
followed by Ash.
He ended up in the laboratory below. He landed on the conveyor
belt just in time to see the poké ball with Pikachu inside
being grabbed by mechanical arms. He grabbed the ball again
to prevent it from being taken into the machine and was able to
pry it from the hands. Ash fell back onto the floor and the
ball fell next to him. It opens and Pikachu emerged.
Then the two heard a few familiar voices - Team Rocket.
They told him that this place was where the clones were being made
and showed him the computer. On one of the screens he saw
a silhouette of Pikachu. Then more silhouettes of different
Pokémon appeared. Each tube then filled up with several
sleeping Pokémon. The Pokémon awoke and then
exited the lab. Ash and Team Rocket looked on shocked.
The poké balls, containing the original Pokémon,
fell to the floor and each Pokémon emerged. Ash lead
the originals out of the lab and back to the room above, leaving
Team Rocket in the lab. Then, Mew, the Pokémon Mewtwo
has been cloned from, flew past the group, following the others.
Above, Mewtwo told Brock, Misty, Nurse Joy and the other trainers
the leave now if they could brave the storm, but they all refused.
Ash arrives in the main room, followed by all of the original
Pokémon. Instead of letting them attack him, Ash ran
towards the Pokémon himself and tried to punch him but instead
hit a shield Mewtwo put up to prevent him from being hurt.
When Ash hit the shield, he recoiled and was thrown back, but rather
than hitting the stone wall behind him, he hit something soft.
He looked behind him and saw Mew. Mewtwo seemed stunned to
see it's original self, but wasn't scared. He began to hurl
balls of psychic energy at Mew, but playfully it dodged every one.
When at one point it seemed to be hit, but instead it sent the
blast back at Mewtwo, but he was again protected by a blue shield.
Mewtwo decided that the only way to see which was more powerful,
the originals or the clones, was by battling. Mew felt that
it would be an unfair fight unless the Pokémon fought hand
to hand rather than with powers (as this is what had been enhanced
in the clones genetic structure). Agreed, the Pokémon
began to fight, original against clone.
The Pokémon battled. Ash looked around the field
for Pikachu. Pikachu saw his trainer, high on a ledge over-looking
the battlefield. He ran towards the ledge that Ash was upon,
but his clone got in the way. The clone began to hit Pikachu,
but he refused to fight back. Ash climbed down the ledge,
but by the time he reached the ground, most of the Pokémon
were exhausted from fighting. The cloned Pikachu hit Pikachu
for a last time before passing out.
Ash ran up to his Pokémon and hugged him. He knew
he had to stop the battle before they all ended up dead. Mewtwo
and Mew returned back to the ground and both prepared to hurl a
powerful psychic blast at each other. At the time they let
go of the ball, Ash ran into the middle of the field. Both
blasts collided, with Ash trapped in the middle. When the
light from the blasts dimmed, Ash hung in the air, his body glowing,
but then he fell, his body lying motionless on the floor.
Pikachu ran up to it's trainer's lifeless body. He knew
that Ash was dead, but that didn't stop him trying. Pikachu
let shock after shock leave his body, aiming the bolts at Ash in
a desperate attempt to revive him. But it didn't help.
He give up, and began to cry. Moved by the love Pikachu had
for it's trainer and his sorrow at his death, all of the other Pokémon,
originals and clones, began to cry.
Then something amazing happened. All of the tears came together
to form a spiral, and then the tears were absorbed into Ash's body.
The body began to glow and when the light left, he began to move.
Moved by Ash's sacrifice, a tear fell from one of Mewtwo's eyes.
He realized that maybe all humans weren't like the scientists who
had created him or Giovanni. Maybe other humans were like
him. He became to believe that Pokémon weren't created
to destroy and kill. The tears taught him that Pokémon
could create life as well as destroy it.
Ashamed at what he had done, Mewtwo left with his clones to find
somewhere peaceful to live. Before he left, though, he returned
the trainers and their Pokémon back to where they were before
the began to head to the island and wiped their memories of everything
that had taken place.
Back at the port, Ash, Misty and Brock wonder what they are doing
by the sea. Then as they leave, Ash looks into the sky and sees
a small, pinkish, feline Pokémon flying. He tells his
friends about it and that it seems familiar. He then vows
that he will not stop until he finds this legendary Pokémon.
THE ENDING
This is a very Anime/Japanese ending (like 'Ghost in the Shell'.
The bad guy doesn't always ends up as the enemy in the end).
At the end of most western movies, the main hero fights and defeats
the main baddie (don't get me wrong, a lot of the time this is the
best and coolest way to go .e.g. Die hard). This ending, however,
is very different.
Instead of by fighting the main bad guy, Ash becomes the hero of
the story by sacrificing his life for want he believes, that fighting,
at least in the case, is wrong. He also receives his reward
for standing up for his beliefs - his life is returned to him after
he dies (in Anime, when someone dies, half of them will come back
to life again). Also, if 'Pokémon' was a western concept,
the main hero would probably have been able to overcome all odds
and defeat the creature that is obviously more powerful than him.
In this case, however, Ash never could have been able to beat Mewtwo
in a battle, even with all of the originals. He is only an
11-year-old kid. The only thing that could match it's powers
was Mew.
Rather than the main bad guy being killed, he realizes that what
he is doing is wrong and has a change of heart. He is not
the evil creature that we thought he was. He just had a bad
start in life and became a misunderstood character (although he
did murder the scientists who created him, meaning that he is not
a fully 'good' character at the end). The change of heart
shows us that he did have real compassion in his heart, but he didn't
express it until this until he saw his enemy, a human, commit a
selfless act. Ashamed at what he has done, he takes the memories
from each person's mind, and begins his life anew.
Ash 'defeated' Mewtwo not with violence (he tried this, but it
failed), but with selflessness. This emphasizes the passive
tone of the movie, proving that violence is not the only way, and
not the most powerful way, to stop someone.
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