One Madara Uchiha died according to Konohagakure no Sato. But when he so-called 'died' he first made a shadow clone before disappearing by putting the eye of one of his fellow Uchiha in place of his own. Luckily this jutsu could jump through space and time. This jutsu was called Kamui. He used this to teleport to the land of Honey. He then roamed the world in many forms for over 15 years and then he traveled too far into Uzushiogakure. That's where we find him now.
"You died to the first Hokage, Madara." Said a woman with dark skin and super bright red hair. She was wearing a basic samurai outfit
"Your right Madara Uchiha died that day. My name is Kazene Uchiha. I am a stronger shadow of what Madara Uchiha was." A man with long black hair and Red samurai-like armor. This man had a battle gunbai. And A Sharingan that the woman hadn't seen before. Both of his arms were covered in bandages. Kazene was a form of one Madara Uchiha.
"Yeah right. Whatever. That doesn't matter at the moment."
"Eh?"
"We could go get some dinner or something, you know, more peaceful!" His talk was interrupted by the woman charged in moving her fist toward the man who called himself Kazene Uchiha. It seemed like the man was gonna be hit but he quickly disappeared and reappeared on another large rock about one hundred meters away. The woman disappeared as well. They exchanged fists for ten minutes before the first jutsu was released.
Kazene Uchiha flew, threw hand signs and then yelled
"Fire style fireball jutsu!"
The woman watched as the jutsu was coming in and then yelled without using a single hand seal
"Water Style Exploding wave!"
She spit a large gust of water out her mouth. When the two jutsu collided a large amount of smoke appeared then the two went back in for more blows. This time for only about five minutes. The woman yelled
"Uzumaki sealing chains"
Multiple dark Blue adamantine chains erupted from the woman's back. And started keeping the man busy dodging. He kept on dodging for at least twenty minutes. When he got tired and flashed His mangekyou sharingan. That is when an ethereal skeleton erupted around him. First it was a Skeleton then muscle then basic armor then it was a half body warrior. It had a blue tint to it. The woman's eyes animatedly bugged at the sight of the skeleton.
"This? Oh this is my Susano'o."
"Well thanks for telling me that and my name is Karui Uzumaki."
Karui quickly prepared hand seals. Then she released her most powerful water jutsu.
"Water style: Kamis rain!"
She slammed her hand on the nearby river. All the water nearby contorted into a giant whirlpool.
That's when one Uchiha Kazene started to sweat. She then releases the jutsu as one large water like arrow of pain. The speed and height and size all considered this jutsu was gonna break the susanoo armor. He couldn't do anything about it though. So the jutsu cracked the susanoo and shot Kazene back really really far back through multiple boulders. And now Uchiha Kazene was soaking wet. And super embarrassed. He jumped up onto the rock behind and back flipped in the air.
"Lightning style: Bolt" Karui shot the jutsu at Kazene.
A large bolt of lightning zipped towards Kazene while he was in the air. So Kazene moved around in the air and dodged the jutsu. He quickly closed the gap between the two fighters.
"Fire style: Majestic Destroyer Flame!" Kazene blew out a giant flare of flames at Karui.
"Uzumaki sealing : Chakra absorption seal." The jutsu was absorbed by the seal on Karuis right hand.
"You're not going to make me pull out my destruction cards are you?" Asked Kazene with narrowed eyes.
"Uzumaki sealing: Human chakra se-." Karui didn't finish her sentence because Kazene uppercut her and then kicked her in the stomach. Blood spilled out her mouth and stained her bottom lip. Kazene undid his bandage and that when two sharingan eyes stared back at Karui.
"Wha-What? Four sharingan?"
"It worked as I intended. I can truly have more than one sharingan pair! Ahahaha!" Kazene then disappeared in a swirl of chakra.
Kazene Uchiha went on to beat Karui Uzumaki even if barely. They then started falling in love. And eventually in the middle of the third shinobi world war they had their only child. Raito Uchiha.
That brings us to the present 10 years into the third shinobi world war. Land of hot water. Eight year old Raito Uchiha was looking at the dead body of his mother and father. His father had just used a technique he had not heard of. It instantly kills anybody considered an enemy.
He called it "Suicidal devastation" . So Raito layed there for about half an hour thinking he would just die as well. But then an hour passed then two hours nothing happened. In the end He got up and found all his wounds were healed. He quickly ran to the back of the house and rummaged through the stuff there to find a bag full of scrolls and notes. This was what his parents called the emergency bag. It would allow to become a B rank shinobi in about one year no matter the age.
One year time skip!
At the border of the land of water and fire. Kakashi Hatake was about to plunge a Chidori through Rin Nohara's chest. Little did he know two other people were watching and neither was a Kiri shinobi. As the Chidori was three inches away from Rin. Then there was a yell.
"Water style exploding waves."
A giant gust of water shot out of the trees and splashed into Kakashi's hand breaking with the pressure of the water. In a hidden area one Uchiha Obito's eyes widened and he ran out of his clearing to kill all the Kiri shinobi around. Seeing Obito Kakashi's eyes widened. Before he collapsed, exhausted from all the previous to anybody Obito was under a Genjutsu to make it look Like Kakashi had killed Rin. After Knocking out the observer that wasn't him Obito left to get help from one Madara Uchiha. Konoha eventually found their unconscious bodies and brought them back.
Hospital room konoha:
Kakashi's eyes widened and he grabbed onto the nearest thing which happened to Sandaime hokage.
"Hokage-Sama, Rin, she has a faulty-." Hiruzen Sarutobi cut him off.
"We know Jiraiya is working on that right now as we speak. When you are ready to walk, go to room 21, we have some interrogation to do."
Kakashi, after getting a clear from his doctor, went to room 21. He opened the door and saw Jiraiya, Rin, Minato and The Sandaime in the room as well as two men from T&I. Inoichi Yamanaka and Ibiki Morino.
"Welcome Kakashi we can begin with this boy's side of the story."
"Uhh, why should I trust any of you again?"
"Don't have much of a choice on that one kid." Said Inoichi Yamanaka
"Wait that chakra, it's unforgettable, it's his!"
"Who's chakra?"
"I-, The Sanbi."
"You were gonna say something." Said Ibiki
"Anyways back to my first question, why should I trust you guys."
"You're not very trusting are you?" Minato asked.
"I just don't trust your headbands."
"Sorry what? What's wrong with our headbands?"
"Your leaf shinobi and I don't trust any shinobi, if there's one thing my father taught me it's that Shinobi Lie, cheat and steal. Also-." The boy was cut off by the new appearance.
"I'm here, why'd you need me?"
"You can be scary when you need to be, so we asked you to come here, Kushina."
"Hey kid!" Said Kushina with a bright smile.
"K-Kushina-Sama?" The boy asked
"Eh? Yeah, uhm why'd you call me that? Wait a minute, Red hair but Onyx black eyes? You're an Uzumaki?"
"Half."
The whole entire room gave him an expectant look.
"My father told me not to reveal my other half, especially to Konoha shinobi, Because I'd be killed in an instant."
"You haven't revealed much info kid." Inoichi said
"Why'd you stop Kakashi from killing me?"
"I wasn't stopping him from killing you, I was stopping him from killing it." He moved his head slightly to Rin's stomach.
"Oh, then why would you save a monster like the Sanbi?"
"Wrong words my friend." Said the boy before he broke out of his chains and grabbed her by the neck.
"Ninja Art Mind Search!" Inoichi said but then he gasped and was thrown back. He quickly recovered and put a kunai to the boy's throat.
"Now You weren't trustworthy before but now you definitely. Not."
"Calm down Inoichi! What did you find?"
"The boy is the son of Madara Uchiha!"
Everybody's eyes widened.
"That's good!" Minato said, surprising everyone, all eyes turned to him.
"I'm sorry what?"
"We need a replacement on team 7 for Obito. This boy is an Uchiha and gives a new power against the other nations. And they have no idea about it." A kunai flew past Minato and into the air. The air shimmered as a shinobi in an Anbu outfit was seen. Only difference was they had a completely white mask. With the Kanji for root. Hiruzen's eyes narrowed.
"You know you're not very sneaky for somebody who is "underground". The root quickly ran off into the rooftops.
"As a show of trust, come back when you have the root nin." Minato ordered.
"I really am gonna hate this. Oh and by the way, My name is Raito Uzumaki Uchiha."
Raito made a hand sign and he was back in his normal outfit of a cloak with a lightning ball in the middle. And the sharingan inside of it. He had a tanto on his back. Raito used the Shunshin No jutsu, without smoke which surprised everyone in the room.
Konoha:
Raito quickly jumped across the rooftops and caught up to the root nin. He tackled the man or at least an exploding clone decoy. There was a big boom near the hokage tower and Raito jumped out the smoke with a skeleton-like armor around his body. He continued to pursue the root nin. Eventually they ran out of the village into the large forests that surround Konoha. Raito flew, threw hand seals and yelled.
"Fire style: great fireball jutsu!"
The jutsu flew through the air and exploded on impact with the trees.
The jutsu flew towards the root nin and The root nin dodged the jutsu. The jutsu burnt a ten meter radius. And left flames burning around the area. The root nin dodged the jutsu and went higher into the trees. They had a hour -long chase, having reached the farthest reaches of Konoha. Where no other ninja could interfere, the root nin turned around to face Raito. Raito flew, threw hand signs and shouted.
"Fire style: Phoenix flower jutsu."
Multiple mini fireballs were spewed out of his mouth. Right after releasing the jutsu, Raito dashed towards the root nin. He threw a left kick. Which was blocked by this masked man. They had a quick exchange of fists and feet. The root nin pulled away and flashed threw hand seals and said.
"Fire style: Great Fireball jutsu!"
"Water style: Exploding wave!" Raito responded
The two jutsu clashed and they dissolved into a large amount of mist. Raito said two words that were reflected right back.
"Mangekyou Sharingan!" Inside of Raito's eyes. There was a spiral with 8 sticks coming in from the outside. A rib cage formed around him, It had a pink tint then it gained a skeletal arm. Then the skeletal arm threw a punch. The root nin moved, and then flew, threw hand signs, and yelled.
"Fire style: Complete devastation!"
Out of the mist was a giant fireball at least a story tall. It exploded in a giant three story tall explosion and at least a thirty meter radius. Raito blocked the giant jutsu with his ethereal armor. The root nin ran towards Raito. It then vanished and appeared behind Raito. But was met with a tanto in the stomach. The root nins mask shattered as well. And a boy that looked no older than 15 was behind it. Raito pulled out the tanto and sheathed it. He grabbed the boy. Who was insanely heavy for a 9 year old. And then he went to the hospital room.
Konoha hospital room:
Raito entered by shunsin. And quickly set the boy on his back down.
"Geez, couldn't it be any easier?"
Inoichi quickly tried entering the root nin's mind with his clans jutsu. But was quickly shut out.
"Good job kid, as sad as it is, you have to go to the academy because you are only 9." Minato said with a smile.
The smile was not returned, instead Raito had a depressed look on his face.
"Alrighty, the boy is dead and you there" looks at Raito "you will need to have a spar with Kakashi to test your skills.
"How about I just tell you?"
"I mean, um that works too."
"My three jutsu are, The great fireball technique, phoenix flower jutsu and exploding wave jutsu. My taijutsu is speed and power based. I have clothes seals all over so I can store clothes. And that's it, oh I have another power but I don't want the entire world to know it."
"Hmm, alright! Enjoy the academy kid!" Jiraiya said before disappearing via shunshin.
Everybody eventually left and Raito went to the apartment that Minato had lent him. And went to sleep. Following this the third great shinobi world war ended after Hiruzen Sarutobi stepped down as Hokage and picked Minato Namikaze to be the Yondaime Hokage. Two years after the end of the third shinobi world war is where we are now.
October tenth, Secret Hokage training ground.
"Fire style: Mad Flame jutsu!"
Multiple large fireballs left Raitos mouth. They then grew and grew until they were each the size of the great fireball jutsu. Raito heard a huge explosion. But was surprised because he was sure that he hadn't done it with his jutsu. He just thought Minato was training. When he finished and cleaned to go home. He saw Konoha in ruins. He was really confused.
Konoha:
Raito tried sensing Lord Fourth's chakra. He sensed that it was pulsing and fading. He flew past hand seals and shouted.
"Lightning Fuin: Electric Current jutsu!"
He melded with an electric current and traveled towards the Fourth. He appeared there a few seconds later in a blue lightning flash. He faded back into human form. And saw a blonde haired baby with a seal on his stomach. Lord fourth was on his deathbed; he was getting paler by the second.
"What the hell happened? I go train for a couple hours and I find Konoha in ruins?!"
"EhEheheh-." Minato chough in spit out some blood."Raito We were attacked by a masked man,"Minato continued. "He wears an orange mask with 8 markings on it. I had to." Minato coughed again. As he got even paler than a sheet of paper. "Seal the Nine tails that he released on to the village into Naruto. Luckily he couldn't find the three tails. But the seal that Rin had is weakening, so ask Jiraiya to seal it in either you or someone new. And no it won't kill Rin. If you have a medic healing her while it happens it should keep her stable. Go train after this would you? So Konoha can be strong again." He paused and got his soul ripped out.
A few days later,
Raito looked at the newly reinstated third hokage. And spoke.
"I think you should have selected a new hokage, no offense sir but per say two s rank shinobi came to the village. We would only be able to defeat one of them."
"Heheh that's true and who would you suggest for the Godaime?"
"Uchiha Fugaku. It would seem less suspicious if an Uchiha was trusted with the spot of hokage."
"I guess that works. How about this, for the six years he trains to become hokage. You for half of that will be taking as many missions as you can? He is a strong shinobi and we need someone who could make up for the loss."
The third suggested.
"Agreed."
A couple hours later Uchiha compound:
Raito and the third walked up and knocked on the door of the Uchiha main house.
A man with black hair and a seemingly permanent frown opened the door.
"Hokage-sama? What can I do for you?"
"Well to start there's no reason to call me hokage sama anymore. And second for the next six years, as an order from the third hokage, you are going to train your ass off. Then you will be given the seat of hokage."
"But doesn't the village think we caused the attack on Konoha?"
"The Uchiha clan will be recognized for their efforts against the Kyuubi. And I will make a formal announcement tomorrow."
"This works for me. May I tell my family?"
"Of course."
The third hokage was standing on a large stage like structure. As he began to speak.
"People of Konohagakure no Satō! We were recently attacked by a man wearing a masked man. This man had a Three tomoe sharingan, but rest assured the fourth Hokage beat him and released the Kyuubi from the man's strong Genjutsu." The hokage was interrupted by a man yelling.
"I KNEW IT, THE UCHIHA ATTACKED KONOHA!"
The man got a large amount of nods. The hokage replied.
"Incorrect we believe this man to be Uchiha Madara or some sort of disciple. The man didn't not have the same chakra signature as any uchiha that is alive. We were further assured when we had a Hyuga and Yamanaka walk through the dying fourths memories. And then checked the Uchiha for this signature. But speaking of Uchiha, in six years we will have our Fifth Hokage. Fugaku Uchiha!"
This sent a large amount of whispers through the crowd mainly about why they were waiting for six years.
"We are waiting because Fugaku-Dono will be training for that time. That is all!"
Slowly everybody left with side conversations.
Three years after Kyuubis attack. Hokage office:
"You're leaving I presume?" The third asked
"Yes you held me back for the last three years so I have to make up for that."
"Alright then you May leave. I believe you know this but Kumo dignitaries are coming to finish negotiations."
"Yeah alright."
Raito left to go train after a few days.
9 years later Konoha forest:
"You, Naruto, are the kyuubi that attacked konoha 12 years ago!" Mizuki yelled!
Naruto's eyes widened and he started quivering with surprise and pain. Iruka Umino dashed in front of Naruto, that's when a shuriken appeared in Iruka's back. Naruto ran for his life with the scroll on his back. Naruto started to understand everything, the glares, the hatred and the constant pain.
Naruto was beating Mizuki to pulp when there was a giant explosion of chakra. Two tails of yellow chakra connected to Mizuki's aura.
"Orochimaru-sama you really are the best!" Mizuki yelled with a shit-eating grin.
"No!"
Mizuki dashed at high jounin speed towards naruto. Suddenly he was going backward and hit one of the many trees. A sudden mist came over the area and a shadow appeared. The man had red hair and black eyes, He had dark skin. The man had a cloak that had lightning with a three tomoe Sharingan. He then wore a basic Anbu outfit with extra chest armor. And a Katana on his back. The weird thing was he had bandages on his eyes.
"Heaven's slice!"
A chakra-infused slash traveled through the air towards Mizuki. Mizuki disappeared and reappeared behind the man. He threw a kick at the man. As the air slice hit the tree, At that moment there was a katana inside Mizuki's chest.
"The hell? Who the fuck are you?"
He was shut up when a giant amount of lightning shocked him. Mizuki coughed up about a cup of blood. But then he screamed.
"Four tai-."
He was cut off when he was killed. There was only a swirl around the area of his heart before he died.
"Geesh, such a loud guy don't you think?" While saying this he turned to Naruto.
Hokage's office five minutes later,
"You were gone for too long." The Hokage spoke
"Oh, I didn't notice. What was happening when I came here?" asked Raito
"Hello, It seems Mizuki tried betraying the leaf through Naruto here." Replied Fugaku Uchiha. With the Hokage hat on, he obviously had not slept well because he had bags under his eyes.
