Naruto: evolution

Short summary: Naruto is taken by future apocalypse to prevent his own defeat. He takes Naruto before he has a chance to mature into the warrior he fears of the future. F-apocalypse changes Naruto so he would be one of the most powerful warriors of the planet and utterly, completely loyal to him. Fortunately, or unfortunately, Naruto is only found shortly before the brain washing could begin...

Complete summary: Naruto is taken after the forbidden scrolls fiasco by the Apocalypse, who came back in the past after being defeated in the future. Future Apocalypse meant his past self to find Naruto in order to prevent his own defeat. Using all the impressive technologies that future-Apocalypse has at his disposal, he modifies Naruto's genes to have the powers of some of the most powerful mutant of his time. Thankfully his plans are all for naught when Naruto is found just before the brainwashing could begin...

I got this idea from reading a story that already exists. I used a lot as a guideline. The next chapter will be entirely different or at least different enough that I can't be accused of stealing. If you recognize parts of the writing then that's because I left it as it was. This entire chapter is not identical though. That's just not nice. Just some parts are.

This happens during 'x-men first generation'

Kingdark

Naruto: evolution

Chapter 01

Two men moved silently down a darkened tunnel that hadn't been entered for months. Dust and other dirt had begun to pile up but not enough that it would be really noticeable. Both men were obvious experienced fighters but also seemed to carry an invisible weight. Something that weighted them down. Right now they were moving with a firm goal in mind and these two had grown very close friends. Best friends even.

Both men were around the same age but couldn't look any more different. The first of the two was dressed in black slacks and a green jacket. The other dressed in a suit of red body armour. He wore a pair of black gloves and knee high boots.

"Are you sure this is the place, Charles?"

"Of course I am Erik. This is definitely the place, Cerebro is never wrong."

That was an understatement of course. Cerebro was a piece of technology that was very advanced compared to the technology available to the common man. It allowed Charles to use it as a focus with its sole purpose finding mutants. It could detect normal humans as well but it was primarily designed to find and locate mutants. Especially the stronger ones. The idea behind the creation of Cerebro was not just to find mutants but also to teach them and to help them control their powers.

Erik knew that Charles was right of course. After all, he had helped him built Cerebro in the first place and knew how it worked. It gave Charles not only the location of a mutant but also told Charles how strong said mutant was. Only the two of them and one other knew the details how to make another. The two men continued walking down the tunnel.

After ten minutes of dropping deeper under the surface they exited the tunnel into an underground base. It was completely abandoned, proven by the fact that only emergency lights were active and that there was no response to their intrusion. Then there was the fact that Charles couldn't sense anyone except the two of them and as far as the two of them knew, there was nothing that could black Charles telepathy.

Charles held up his hand to make Erik stop for a few moments. "There are a few cleverly hidden traps ready to be triggered by pressure plates. Follow me exactly. I don't want the security system to go off. Something tells me that the technology here is far more advanced then anything available on the planet. Or a hundred years from now."

Erik said nothing. The statement caught him off guard but he went on high alert still. Charles 'guess' was an understatement if anything. The weapons available in some of the rooms, not to mention the technology hinted at something extraordinary.

"I have a feeling I won't like what we'll find." Erik muttered.

"So do I." Charles agreed.

"Tell me why we had to do this in secret again?"

"Because this mutant is possibly the most powerful mutant I've ever sensed. We both know what the government might do if they discover a mutant with the possible power that this one has..."

Erik snorted. Of course they knew. It was only because of Charles telepathy and his uncanny ability for finding blackmail that they weren't test subjects in some random lab.

"We've arrived." Said Charles suddenly.

The two of them stopped before a door of solid steel. Erik tested the metal at it barely reacted at all. "This isn't normal steel Charles." Erik said cautiously. "It barely reacts to my commands at all."

"Let me give it a try. Maybe there is some computer equipment that I can use to open..." Charles trailed off as he automatically closed his eyes in to concentrate.

A few moments later they heard dozens of locks and other security measures disengage. "It was a good thing you didn't force it." Charles said after a moment. "It would have activated every defence in the base AND the self destruct system. If I'm right it would have enough explosives to... Well it would be a very strong explosion." Charles finished. "I'm not sure I can give a fair guess as to how powerful it would be."

"Let's move onwards instead." Erik said after a moment.

"Right." Charles agreed. "We can check the computer for details later. Erik..."

"Yes?"

"If this base is truly as advanced as it seems..."

"I know." Erik said after a moment.

The two of them stared at each other. Erikwas comfortable enough with his friend to exchange thoughts and idea's as they popped up. You would be surprised how quickly you can come to a solution if you can communicate like that."

"Let's wait until later then." Charles acknowledged.

It was only now that both noticed a seat of initials that were repeated throughout the lab. Like a national flag or something. "I wonder what A-O means." Erik muttered lowly.

As soon as both of them entered the room, lights activated on their own as did various computer screens. More importantly it light up the machine in the middle of the lab. The sight that greeted them was something they had... Expected but not wanted to see. They hadn't wanted to think on the details. Hadn't wanted to accept the reality of the matter. In the middle of the room wasa machine that held a glass tube. Within said tube was a boy around his teenager years. The teenager was completely nude with only the required tubes to remove body waste.

Erik could sense the anger of his friend and he couldn't blame him. Charles always tried to see the world as positively as he could. Not wanting to acknowledge the darker parts of humanity. Perhaps now he would agree when they had their next debate.

"My god what have they done to him?" asked Charles in shock. "The same what they did to Logan I'm sure. Or similar to at least." Erik said darkly.

Charles had moved towards the computer terminal and logged in with the details on hand. "If there was a single doubt that this equipment was of the future... Then there is no doubt now." Charles said after a moment. It took him a few moments to get used to the system but eventually he managed to summon the information he wanted.

Suddenly a transparent figure emerged in the centre of the room.

The figure was a giant standing at least seven foot tall and was very muscular. His skin was grey and eyes were red. He wore a pair of deep blue shorts along with a muscle shirt of the same colour with a pair of gloves and boots.

"If you are seeing this then you have finally awakened and found this little base. As you can probably guess I'm you. Only I'm you from the future. Or a future. That sort of thing gives me... Us always a headache. In the future I take up the name of apocalypse and in the future I have been defeated by the very child I have taken here in this chamber. The child in the tube is Namikaze Naruto except he only knows himself as Uzumaki Naruto. When I first encountered him, we fought and I lost badly. I lost because I underestimated him and I lived to tell about it because of his kind nature." The figure paused and began to pace.

"The only reason I can tell you this now is because I'm spending all my energy to keep myself together. Once this is done I'll die and nothing will remain of me. I came back from the future to prevent my own defeat and what else is a better solution then to make a trusted ally of the one that defeated me? By the time he is twenty four, the age where we first met he is a greater warrior, and more powerful then Charles Xavier from his band of heroes he called the x-men and Magneto's brotherhood of mutants."

Charles and Erik both startled when they were referred to. Not together but what it implied... "Does this mean we'll become enemies in the future?" Charles wondered. Erik didn't respond because he knew that it wasn't that ridiculous.

"Naruto... Naruto was the leader of his village. A village full of mutants that somehow had a long history of their own. A whole continent that existed in another dimension at the same time it did as our own world and Naruto... That same boy was the sole survivor of his entire people. He proved time and time again why he had been acknowledged as a double S class ninja. I'm not going to waste time by going into detail because I recorded all of it in the computer here should you be interested."

"This is Naruto when he is an adult." Future-Apocalypse was replaced with the same child only he was much older. He stood roughly six feet in height, wore black pants that were taped down with white bandages. He wore a dark orange vest that had signs of being custom made because of the black flames printed on them. Finally, the older Naruto wore a forehead protector that had a spiral edged into it with a small arrow attached to it. The plate was held in place by a long strip of black cloth and was tied to his forehead.

"This man was capable of summoning toads, dogs, birds, salamanders... And all of them were the size of three story houses." Each example was replaced by a picture.

"Naruto is capable of regeneration, super strength, reflexes that no regular human can repeat and a strong sense of smell and taste. All of these attributes don't even make Naruto unusual among his people. Naruto could manipulate fire, wind, earth and just about any other combination he wished and all of these things are still connected to the energy all of his people can manipulate."

"Naruto's people discovered that there is a way to control their mutation. To control it from a young age. Their unusual mutations are gathered in clans and are highly valued. They were encouraged to breed with the hopes of creating more children with the same power. Chakra, they call it my younger self. Know how to manipulate chakra and you can unite all mutants under one banner. These people have developed hundreds if not thousands different techniques... This makes them highly valuable."

"And do you know what the funniest thing is of all? His potential is suppressed! On the continent where this child lived, there were nine powerful creatures. Nine beasts of pure energy. Of negative energy. At some point they were captured and sealed in human infants. Eventually they were used as weapons but a few things remained the same. These children that carried these beasts were feared and loathed. They were treated as garbage and this same boy is no different. The beast he carries though is actively suppressing his potential until the boy manages to conquer the beast for himself. It is only then that they get respect for the other and the child is no longer restrained in what he can become and STILL it isn't his mutation."

"This guy sure likes to talk doesn't he?" Charles muttered.

Erik snorted but didn't say anything.

"I took the boy after he was tricked. He was tricked in stealing a highly valued scroll. I took him away before anyone could find him. I took him just so he could find that he is a wanted criminal to be killed on sight." The figure shrugged. "You can tell the child what you wish, but if I were you I would tell it so he would begin to hate it. That he would want to destroy the village and take its shinobi as slaves. It would be the ultimate irony considering he always wanted to be Hokage. The strongest of the village and ultimate protector of it..."

The figure shook his head and glared at the tube. "They say no plan survives the plan with the enemy and I would say they are right. The beast that Naruto held must have sensed me because it attacked the seal and let itself be absorbed. It no longer restrains the child in any form. It has given the child a form of healing that could probably regrow a hand, arm or even a leg. I did tests and only wolverine of the x-men can match Naruto's ability to heal.

"And now I come to my best plan I ever thought of. A plan that will either spell our defeat... Or our guarantee of victory.

"I have stolen the DNA of several powerful mutants of my time and this one. But I'm not as foolish to just dump it into his system and hope for the best. Even though I will die should I ever lose concentration that doesn't mean anything. I used my technology to put this base in a localized bubble of time. I visited the future and stole technology as was needed. Trust me when I say that the boy will mature and have the mutations of the ones I stole as if he were born with them. The power of Charles Xavier, the power of his enemy and ally alike, Magneto and many others. If you can get his loyalty he'll do what you want no matter what. But if you betray him... If there is one negative point it is the fact that there is no way to control him. No way to limit his power. Help him control them yes but not seal it away."

"The bonding of the adamantium should be complete by the time you find him, so he'll be like wolverine in this. Be careful and vigilant with the mental conditioning my younger self. Don't go overboard with it because he has a brilliant mind. The best way is to make him loyal on his own. But If I know myself as well as I do... Do as you wish." The hologram faded after that.

"Charles.." Erik muttered.

Charles looked at his friend. His own emotions were clear to see. This child had enough raw power to be a world wide threat should he ever go bad. But did they had the right to kill him before it ever became an issue?

"We can teach him values Erik..." Charles muttered. He looked his friend straight in the eye. "I know your opinion over certain things but even you should know that if Naruto ever goes bad... Truly bad... That the damage he could do would be enormous. There would be virtually nothing to stop him."

"I know." Erik acknowledged.

"He has no reason to trust us though..." Erik pointed out.

"We could tell him the truth." Charles ventured.

"And then what?" Erik challenged.

"There is a lot in here to be angry about. A lot of secrets kept from him. Hell, anyone would be right to be angry. To be hated because of something you were born with."

"We wake him up." Charles decided. "He'll have my power so he'll know we mean well. We can teach him and then he can return to his village. Where is that scroll that apocalypse mentioned?"

"Over there." Erik gestured.

The scroll was in decent shape so they would keep it safe in a high security safe.

Charles accessed the computer again. "The conditioning hasn't started yet. Apparently, his younger self was supposed to make the decision."

'Get rid of it." Erik ordered.

Charles nodded his agreement. After he made the decision, the tube light up once more.

FINAL STAGE ACTIVATED. SEALS BEING IMPRINTED NOW.

Both men blinked several times. "What does that mean?" Erik wondered.

Charles finger's flew over the keyboard as he hurried to find an answer. "It's a safety measure. A way to control his powers and to activate them when he is ready for them." Charles read from his screen.

"Catch him Erik" Charles barked when he noted the tube was draining and his friend was lost in thought.

Erik snapped out of it and was just in time to catch the teenager in his arms.

"I'm going to put all the data on the servers on these disks. I'll arrange that the hardware will be transported to my home before this whole base will self destruct."

Thirty disks later and it was complete. It was an enormous amount of data and when they explored the base they realized it was FAR bigger then they had thought. This required more manpower then they had available...

X

Weeks later...

Sarutobi Hiruzen frowned as he looked upon the faces of his two loyal students, Jiraiya and Tsunade. He had called for them for the first time in years and had just told them of the disappearance of their godson. Or rather why they found out that their godson was a wanted criminal. At twelve years old! The look he received from them would've been enough to kill anyone else. This was mostly because he had lied and told them originally the boy had died the night he was born. Suddenly the doors opened and two people entered the room getting raised eyebrows from the group of three.

Their meeting was interrupted when the door of his office opened and two men were allowed in. Hiruzen frowned when his ANBU allowed these foreigners inside when he had told them that there were to be no interruptions.

"I wouldn't blame your bodyguards Hokage-san." The bald men said rather rudely.

"There are pieces of information I have in my possession I think you'll all find very interesting. Where your godson is and just why he was declared a criminal. Why you thought him dead perhaps..." Charles gave them a look. "I haven't kidnapped him. In fact, if anything I would be a rescuer. I told Naruto everything I know, and he knows that I haven't lied to him because it's pretty much impossible to lie to him now." Charles said. He used these words to confuse them and to make them ask the obvious question.

"What do you mean, he can't be lied to?" Hiruzen demanded.

"I am a mutant, Hokage-san which means I have something in my body giving me an ability. It is what you know as a bloodline limit. My ability allows me to hear the thoughts of anyone I wish and send my own thoughts to anyone I wish. Nobody can lie to me because it's only a matter of checking your memories to confirm them."

"Are you telling me that Naruto has such an ability? That's impossible! His father didn't have something like that and neither did his mother!" Jiraiya argued.

Charles shrugged. "I haven't finished have I?" And so Charles told them the relevant pieces of Naruto. How they found him. Bits and pieces of the future and what Naruto could do right now.

"The place you live exists in another... dimension. But at the same time it exists in my world as well. Apocalypse watched Naruto for his entire life, watching and waiting for the right time. He watched and learned how to predict your moves and you did exactly as he predicted you would." Erik said with a nod.

"What..." Hiruzen began but he was interrupted.

"What do you gain by telling us all of this? What do you want from us?"

"Do you know how to deal with a teenager with enough power to destroy the world?" Charles asked instead.

"Because that is what your godson is. That is the sort of power he has available to him. I can only thank apocalypse that the man was smart enough so that Naruto could choose to activate another ability of his. That he can master his abilities one by one..." Charles glared at them. "The only way he would activate another before he's ready is if he's made very angry or emotional."

"Do you know that it was Naruto's dream to become Hokage?" Charles asked those present. It only took a moment for them to pick up on the past tense.

"Was?" Hiruzen asked cautiously.

"His dream is to unite all mutants under one banner." Erik said with a smirk. "He wants for them to be a country on its own. To be respected as a country on its own. I wanted to make mutants the ruling race, but if we were to be made a country by ourselves with all rights and advantages that it offers..." Erik allowed himself a very wide smile.

"We would become the most powerful nation by default. Now... Do you want to repair your relation with Naruto... or not?"

"Yes!" Jiraiya, Tsunade and Hiruzen responded immediately.

"Then tell your people the truth. Tell them who Naruto was. What he carried. Tell them that he was taken because of the power he carried so he could be taught how to wield it. Tell them about the threat that apocalypse forms."

"I lack the proof to make any sort of point." Hiruzen pointed out logically. "Look, you made your point and I want to belief you, hell I do belief you. But others won't. The other clans won't. And if my own people will doubt my word then the other villages will also doubt my word."

"Then prepare anyway." Erik shrugged. "Prepare for war. We will teach Naruto everything we know and return in four years when he's sixteen."

"I will join you." Jiraiya said immediately. "I abandoned my godson because of duties. I'll be damned if I do so again."

"I agree with the pervert." Tsunade said quietly. "I didn't want to come here but I did so anyway because sensei called in the every favour I owed him." She shrugged. "I'll teach the brat control if nothing else. He's the closest thing I have to family except Shizune, Jiraiya and... sensei." She said after several seconds.

"We know that apocalypse will start a war in the future. We don't know the exact date. We do know that his younger self is active here. He's been manipulating things for decades. It's all I can do to disguise my very presence." Charles said slowly. The younger self doesn't know about the lab or Naruto. But that doesn't mean he isn't a very powerful mutant with a God complex. I can guarantee that Naruto will play a role in the war to come."

"What about Kakashi?" Jiraiya said after a moment. "I know that the man is getting into a depression ever since you declared Naruto a criminal. If he knew about this he would want to protect and teach Naruto with everything he knows."

Hiruzen shook his head. His eyes glazing over. "He's supposed to teach Uchiha-sama."

"Did he just..." Jiraiya asked with wide eyes.

Charles unleashed what power he could spare and checked the Hokage's mind for tampering.

"Do you know who Danzo is?" Charles said after a moment. "I suggest you track him down and execute him for treason. He's the one that has managed to control the Hokage to a point. Hiruzen has a very strong mind. Otherwise, Naruto's life would have been even worse.

"Excuse me for a moment." Jiraiya muttered. He walked outside and they heard him tell the secretary council man Danzo's presence was required with great urgency.

"That should take care of that." Jiraiya said with a nod. "Tsunade... Can you use THAT genjutsu on him?"

"But we agreed to..." She protested before she cut herself off. "You're right. He deserves it."

That same night, elder Danzo was rushed to the hospital because of a heart attack. Tsunade managed to keep the man alive but in a coma.

Charles retrieved every bit of useful information he could and 'copied' that knowledge into Jiraiya's, Tsunade's and Hiruzen's minds.

"That... Bastard." Tsunade growled. "Agreed." Jiraiya muttered.

Hiruzen glared at the ground. "Charles, can you... Modify someone's behaviour?"

"Modify... How exactly?" He wanted to know.

"Danzo has done many bad things. But he's also a useful tool we can use from a distance. Change a number of things in his personality... Make his first priority to obey me... Or the next Hokage... The illegal ANBU are already there. They exist. They made the sacrifice as they have. The only thing we can do is not recruit any more but use what we have available."

None of them liked it but they saw the point in it.

"With Jiraiya, Tsunade and Kakashi teaching the boy... He'll grow strong very quickly." Erik spoke up again. "Isn't that too much pressure to put on a boy? How would he even think himself as? A mutant? A ninja?"

"That's his decision to make." Jiraiya spoke up eventually. "I'll let him sign the contract of the Toads."

"And the slugs." Tsunade added.

"And the monkeys." Hiruzen finished. "But only if he's ready. "If I tell them what you told me... I need to get stronger too. I let myself get too weak for my comfort."

"Each of us already has made mutant allies in the outside world." Erik began. "It's going to be difficult for them to want to follow Naruto as a leader.."

"He's not." Charles pointed out. "Not yet at least. Let the boy prove himself. Let him make his own choices."

X

I'm guessing that the end result is entirely different. Different enough that you can't know where I got it from. A cookie if you tell me the original title...