Wanted

by Crazy101

Rating: teen
Tags: Nightmare Moon, Thriller, Science Fiction, King Sombra, Adventure, Princess Celestia, Crossover, Main 6, Gore, Anon, My Little Pony: Friendship is Magic, Dark, Alternate Universe
Length: 2725

Mewtwo is running. Everyone is looking. He has a solution that doesn't involve his capture, but gains a little more than freedom.

Mewtwo has been hiding for over a year now, and it's not paying off, so he attempts the political ladder, then succeeds. As a result, he hatches a plot not to just gain more power, but to rule everything. In order to stop him, the entire galaxy must unite to save not just Equestria, but everything we know. There's only one question: can Friendship always save our asses?

Published 2017-03-30 03:00:01 UTC
Last updated 2017-03-30 03:00:01 UTC

A Preposition

A Preposition

Mewtwo was tired of fighting. That's all he ever got to do. Fight. He was sick of it. Considering how lonely he was, he was surprised to keep being found by good and evil. In the end, both sides used him as a tool. It sucked.
Now, Mewtwo hid in the heart of Equestria in Manehattan, where no one would care if a pony stuck out.
Yes, Mewtwo temporarily changed himself into a pony when he needed to buy things. So what?

In the meantime, Mewtwo was hungry, so he always had a box of waffle mix. He was going to make pancakes, but why not waffles?
When he began to sit up to make himself some breakfast, he was pushed back into bed.
"What the hell" Mewtwo thought. The hoove which held him down was firm, intentionally keeping itself on his chest.
It was a black, with a blue glow to it. Beside it, beautiful hair sparkled in dark colors. Mewtwo was mesmerized by it.
Mewtwo looked up. A face was hidden by shadow, fake shadow.

"I have a preposition for you" the face said, not yet revealing its identity.
"Who are you" Mewtwo asked. "Why are you here?"
The figure leaned in. Mewtwo had seen her before, but couldn't remember where.
"I'm Nightmare Moon" she said, "like I said, I have a preposition for you."
"Which would be" Mewtwo asked, puzzled by what was happening.
"As you know, you are wanted by everyone, and it must be annoying running away all the time" Nightmare started,
"Considering how powerful you are, you would make a great addition to The Dark Council, which, if you joined, would make sure you were hidden, never to be found by Equestrians or humans, as long as you do as I say".

"What kind of things would you ask me to do" Mewtwo asked, gazing into Nightmare's eyes.
"Oh, just simple scrimmages for more territory, after all, Equestria is in chaos" Nightmare answered.
"That's it" Mewtwo said.
"That's it" Nightmare said.
Mewtwo pondered on it.
He had never actually joined a government council, and it sounded good.
"I think I might just do it" Mewtwo finally said, thinking of the beauty of Nightmare Moon.
"Excellent" Nightmare said, "Lets go see if the Council thinks your worthy enough to join.
And they left.

The Convention

Author's Note

Random updates do come in this chapter. BE AWARE.

The Convention

Master Chief had returned to his assignment happily after he left the Emergency Room. He was then assigned to protect Twilight Sparkle, Princess of Friendship. She was to give a speech about a plan to stop Mewtwo's newly formulated plan to take Canterlot, the Equestrian capital.

All of this meant Master Chief got to follow Twilight around all the time, looking like a stalker. Right now, Twilight was in her palace library preparing her speech on a theoretical weakness of Mewtwo's. She was mercilessely droning on about how once Mewtwo was caught, experiments needed to be conducted on his magical capabilities.

"... and surely Mewtwo can't resist the Elements of Harmony, I mean, no pony can, right?"

"Uh-huh" was all Chief could say.

"Are you sleepy" Twilight asked, "I can't see your face, but I bet your eyes are barely open."

"I'm just bored, that's all" Chief replied.

"Bored, by fighting evil?"

"You don't know what iv'e seen" Chief retorted, "way worse than this."

"Really" Twilight asked.

"In short, I stopped an entire species from going extinct and the galaxy being destroyed. This, is nothing, just a wanted criminal."

"Tell me more about your adventures!" Twilight exclaimed.

"You have to give your speech in an hour, so you should study your speech as best as you can, then teleport us there."

"Let's go now."

"Alright."

Instantaneously, they were transported to Canterlot Castle, where many had gathered for the New Annual Defense Convention. Posters were hanging everywhere advertising different plans. Overall, everything was cluttered.

"Two minutes to show time" an orange stallion told Twilight, "better get ready."
"Of course" Twilight said. She began to practice her speech one last time before the Convention.
Chief thought about how much he had done, but at the same time how much he hadn't.
______________________________________________________________________________________________________________________________________________
"Are you ready" Nightmare asked. "I think so" Mewtwo replied. He had already donned his battle armor and obtained his energy sword. They planned to breach Canterlot castle with an army of nine thousand troops and easily take the throne, which would be given to Mewtwo and his bride, Nightmare Moon.

Their ship was halfway to the castle when a foreign transmission came in.
"This is the Mothership Battery, you are to surrender, or else face being extinguished" the mechanical voice said.
Mewtwo stood up and unsheathed his sword. He was going to fight.
______________________________________________________________________________________________________________________________________________
Twilight had already begun to present her theories on how to stop the Dark Council. As any speech would be, it was boring as hell. Even though Master Chief got to hang out behind the curtain, he still felt like a pedo or something.

Then the roars came. The sound of engines. The walls came crashing in like a rhino pushed them down.
What emerged surprised everyone, even Chief.

It wasn't what everyone wanted, but it was something.

They glimmered like polished metal. Which they were. Large, mechanical ponies with weapons mounted on their sides, already searching for Twilight. Chief completely ignored typical policies and stood next to Twilight.

"What's going on" Twilight asked, obviously confused. "Were attacking a deep voice said.
Mewtwo.

The Fight for Equestria

The Fight for Equestria

Mewtwo unsheathed his sword. He was going to have fun today, especially with the robot army given to him by Sombra. He quickly directed the machines mentally, then went to his own hand-to-hand combat. After a good few minutes, the floor was covered in bodies.

So far, their resistance was strong, so there wasn't an immediate takeover of the palace, but he would get there eventually. Then he saw him. It surprised Mewtwo to see him, and wasn't prepared. I mean, it was kinda difficult before to take out a spartan before, and based on the fact he survived, it may become even more difficult.
Meh, who cares?

Then Mewtwo was jabbed in the back what felt like the nose of a rifle. He let out a surprised, painful cry. But he recovered quickly. He turned and rested his hand on the rifle and tried to move it from his back, but was stopped by a strong hand. He glanced at the hand, and realized who he had engaged in combat with, and reconsidered his options: telepathy.

Mewtwo sent Master Chief flying into a nearby wall, crumbling under the impact. But he just got back up and charged at him again, this time a pistol in his hands. Mewtwo moved the pistol from his hands and threw it across the room, then attempted a mind-fry on him. It failed, which meant he had a Psy-Screen, which can deflect psychic waves. Mewtwo turned his sword to the charging superhuman. It would work.

Then he was gone. "What the hell" was all Mewtwo could say before being pushed to the ground. He had been jumped over. "Listen, you're under arrest and coming with me," he told him, "or else you'll die by punch." Mewtwo knew he would've, so he teleported out of the man's grasp and began to stab him when the man as engulfed in a cloud of black and blue. Nightmares.

Nightmare Moon had come to his aid. She forced the man to start screaming in fear and thrashing all over the floor.
The man then fell asleep, which Mewtwo hoped would remain. In the meantime, all Mewtwo needed to do was find and capture the Princess of Friendship, and he had won. Mewtwo took a quick look around the large meeting room and found nothing. He quickly conveyed a message to the machines telling them to begin looking outside the room and into the heart of the palace.

But he quickly canceled that when he saw not just the Princess, but five more ponies to take as Prisoners of War. They were levitating across the room with rainbows going about them. The turned toward him. He knew what was coming.

Elemental

Author's Note

The final chapter, of this part of the story yet to come.

Elemental

"We have to stop him, or else Equestria will be destroyed, and never be united again" Twilight told her friends, "and we only have one chance, so let's do it right the first time!" "Hooray" her allies cheered. They were ready. So was she.

"Mewtwo!" It was loud, and the room silenced. "Well, look who we have here" Mewtwo said, obviously trying to sound more confident than he really was, "care to join us?"

"Nope!" It was sudden, like shivering in the cold. They began to accelerate their power to its full potential, glowing brighter in the process. Mewtwo only grinned. He was hiding something. But no one could stop the Elements of Harmony, so Twilight didn't have to worry.

The rainbows were as bright as hell, and they kept whirling around the ponies, looking more confusing every second. Twilight opened her eyes, which revealed nothing but blinding light, and sent all of her power hurling at the common enemy of the whole galaxy.

All Mewtwo did to protect himself was lift his hand and seem to catch it, which caused even more light. Mewtwo didn't even blink as the entire force of magical energy was shrunk to the size of a tennis ball, which the enemy now held in his hand.

"Looks like you failed" Mewtwo said, "you have nothing left, not even Friendship, but if you surrender, I'll make sure you and your friends live past this moment." He sounded for real. He waited a few seconds. "Well?"

Twilight didn't know what to do. She wanted her friends to live, but have Equestria taken over, that was against her duty as Princess. But her friends. She sighed. "I accept your offer." It practically blew Pinkie Pie over, who wasn't expecting this at all.

"Excellent, I'll make sure you're taken care of." He sounded truthful, but he was the enemy. Robots came over to them and guided them to a large flying box, which was full of prisoners.

This was the end.

Exodus

Master Chief looked around the corner. His pony squadron were patrolling a large warship known to have been under the command of the infamous Mewtwo.He was the only human in this squad.
No one had been picked off yet by anything, but Chief could just feel something was going to happen.Chief put up a hand to signal they stop. He had heard something.

Footsteps.
"Ponies" someone exclaimed, "I can hear their hooves!"Chief looked around another corner they stopped at and saw something move. It was tall, but not their primary target.
It was the Arbiter, and a pony.
The pony wore silver armor and a green flame emitted from his eyes.
"At ease" Chief said, getting up from his crouching position.
The soldiers behind him relaxed a bit.
No one saw it coming.

With a large crash, a wounded stallion was tossed to The Arbiter's feet. His neck and hooves were being held by cuffs which must have been attached to a chain, which must have broken off.
The Elite stared at him with curiosity.
The stallion was cut in every place imaginable. His breath was hoarse.
"Don't go in there" he said. Suddenly, the ship began to rumble with the sound of cracking metal.

A door flew from where the stallion had been and the unicorn accompanying him was hit, smashed to the floor.
"Sombra!" the Arbiter shouted. He removed the door from atop Sombra. His chest had been severely damaged by the door.
From where the door was a figure emerged. It was a good six and a half feet tall. It was clad in silver armor, which was covered in blood. The figure had a large purple tail, which was hardly visible in the dark of the ship.
"Who dares board the Exodus" the figure shouted, emerging from the shadows.
It was Mewtwo.

He reached to his waist with a three-fingered hand and pulled out a metal bar, which revealed an Energy Sword. It began walking toward the Arbiter and Sombra.
Master Chief also walked over in case he needed to defend his allies.
At that moment, a loud squeaking sound filled Chief's head. He couldn't stop it.
Everything went black.

Surgery

Surgery

Danny looked to the skies. He thought that maybe there would be some light today.
Nope.
The sky was still polluted by King Xeltor's factories. As his first son was born today (named Sombra), most workers were allowed to take the day off. Many attempted to escape the Crystal Empire today in their free time, but were kept in by the slave guards.
After the whole fight for the Crystal Empire thing, he left as soon as he could and became a surgeon.

Equestria wasn't all bad, but he was presented with some serious cases, like the one he was currently in.
He was to mend the broken metal bones of a human clad in green armor known as the Master Chief.
So far, it was tough. Right now, he was attempting to re-connect two pieces of the man's spinal cord.
Danny felt movement.
The man's voice was hoarse, but understandable.
"Where the hell am I?" he asked.
"You're in the hospital" Danny replied, "your a tough guy to still be alive and have a broken spine."
"It happens" Chief said. "What's going on outside" he continued, "is there a party for me almost dying?"
"No,silly" Danny told him, "it's the Convention to stop the whole Dark Council, now that Mewtwo's on it."
"When did he get on the council" Chief inquired.
"About three weeks ago" Danny said, "everyone's scared Mewtwo can do even more damage to Equestria now that he's joined the Dark Legions of the Council."

"Hmmm." Chief seemed to ponder on it.
"Your spine's ready to go!" Danny exclaimed, "you can leave now."
"Great" Chief said, sitting up in the hospital operating table.
He turned and left the room.
Danny was left alone to determine whether or not Chief was going to do something bad.
Probably not he thought to himself.

Before the Council

Before the Council

Mewtwo wasn't really nervous, but he wasn't completely confident that he would be able to join the higher ranks of the Council. After all, he could tear it apart if he wanted, and everyone on the council knew that.

"It's going to be fine" Nightmare assured him, "most of the Council members admire you."
"Really" Mewtwo inquired, "they do?"
"Yes, they do" Nightmare told him, "they're confident in your abilities to help our cause."
Both of them turned and faced the large double doors before them.

They opened, and what was behind them amazed Mewtwo. There weren't that many people presiding over his briefing.
Every one of the members looked ready to have reasons to keep Mewtwo from climbing their political ladder. Mewtwo silently entered the room and stood behind the designated pedestal. Nightmare Moon took a seat in a chair surrounded by other members, making it difficult to see her.

A member stood up. If Mewtwo remembered correctly, his name was Sombra. Mewtwo had taken over the Crystal Empire a while back for him. "I would just like to deliver my opinion to my fellow Council members before we begin" Sombra said, "I undoubtedly agree on the fact that this fellow, should take the seat of high Alchemist, replacing the one we so terribly lost to The Elements of Harmony."

A murmur spread through the crowd, making Mewtwo wonder if they were on his side or not.

A few hours of background questions and ability checks passed.

Finally, Mewtwo was asked to leave the room while the Council cast their votes. After a few minutes, Mewtwo was instructed to return to the place in which he had stood before.

"The Council has voted," the High Elder began, "and I am happy to inform you that you have been given the seat of High Alchemist, Third in command of The Dark Council."

Mewtwo smiled. He did it.