Naruto had knocked out a Root ANBU and placed his hand on their head.

"Human Path: Absorption Soul Technique," he spoke.

He began to read his mind and, having found out where the exit was and where the villagers were being held, he ran off.

Naruto thought to himself, 'I'll have to ask Tsunade to reveal my Jinchūriki status and my family. I also have a plan to prove that we are not one in the same, Nine Tails.'

The fox demon simply told him, "I have a name. It's Kurama."

Naruto paid the fox no mind as he quickly came to the door of the large holding cell the villagers were being held in. "Danzo's so sure of himself he didn't post a guard. Bansho Ten'in."

The door flew off its hinges as Naruto broke a chakra suppressing seal. The entire village saw Naruto's Rinnegan eyes.

Meanwhile…

At the other end of the base, Shinji was still in his purple one-tailed chakra shroud, running around like an animal looking for a way out.

Shinji was growling when he came to a dead. "STUPID MAZES! I HATE THEM!"

The chakra shroud grew slightly stronger which lead to Yin Kurama saying, "Then, why not just brake through it your wearing my power as armor? Nothing can stand in your way, kid."

Shinji then punched the wall, destroying it with his demonic chakra-powered fist.

Shinji looked at his hand as he thought, 'This is like an Evangelion going berserk, but in reverse.'

Yin Kurama thought to himself, 'The boy can think while one and a half of my tails being used. His mind is stronger than that Gendo bastard, though. '

Shinji just continued running on all fours through the Root base, trying to find a way out.

Meanwhile…

Naruto had led the villagers to the exit and, as they left, he grabbed Tsunade by her wrist and said, "Tsunade, I know who my parents are. Tell the villagers – shinobi and civilian alike – who they were and what is sealed inside of me. Don't worry. I have a plan to show them that the Nine Tails and I aren't one in the same."

Tsunade was still in shock about Naruto's eyes, but just nodded as he let her go.

Yang Kurama then told Naruto, "Kit. My other half is in the base. I can sense him. Come to think of it, I sensed him in that kid you found. I guess the reaper couldn't take his evil anymore and threw him up."

Tsunade looked at Naruto and stated, "Come on, kid."

Naruto just shook his head. "I can't, Baa-Chan. The fox in me is just the good half of the Nine Tails and it told me that the evil half is down here. I've got to take care of that." He then vanished.

Tsunade's eyes widened. 'Wait… The Nine Tails that attacked us had a good side and the pure evil side is down here? I need a drink now more than ever…'

Naruto had vanished and was deep inside the Root base, walking through holes in the walls. "Smashed straight through. I like this kid's style."

Naruto then saw Shinji in a two tailed purple chakra shroud. The boy quickly jumped at Naruto. Naruto simply held his hand out and said, "Preta Path: Blocking Technique Absorption Seal."

Shinji's two-tailed Yin chakra shroud was then ripped form him and absorbed into Naruto, making the boy fall down onto his butt.

Shinji rubbed his head as he looked at Naruto and jumped a little. "Dude… What's up with your eyes and what the hell's going on?"

Naruto put his right hand on Shinji's forehead. "Let me just show you the Human Path's mind connection."

Shinji and Naruto then lived each other's memories like they were their own.

Naruto quickly took his hand off Shinji's head. "So… You're not from this world… I thought my life was weird…"

Shinji got off the floor. "No. Your life is way weirder, Naruto. Believe it!" Shinji then covered his mouth.

Naruto raised an eyebrow, "I think connecting our minds like that gave us some of each other's personality traits. Believe it!"

Yin Kurama thought to himself, 'This boy's broken mind isn't just remembering the holder of my father's eyes memories. It's fixing itself by treating them like they are his own. This boy will soon have this Naruto boy's 'always-get-back-up' attitude, plus the experience and knowledge of all of his jutsu. It's like some kind of shinobi cheat sheet. '

Naruto looked at Shinji before he turned around and told him, "Since you have had no shinobi training, I'll take you to the exit before I go after Danzo."

Shinji nodded as he followed Naruto to the exit.

Once they came to the exit, Shinji parted ways with Naruto and headed up the stairs to the village, only stopping once as a flashback hit him.

Flashback…

Shinji was standing in front of Mizuki when he used shadow clone.

End flashback…

Shinji shook his head. "What the -? That was one of Naruto's memories. It had to be. So, why was I seeing it through his eyes?"

Yin Kurama smirked. "Your mind is so broken thanks to your father's work that it's trying to fix itself by copying that Naruto boy's. So, kit. Looks like you have his experience when it comes to jutsu. That's what you call the use of chakra, or, as you know it, the A.T field."

Shinji just started to walk up the stairs again as his mind flashed back to Naruto learning the basics of chakra use and control. "This is giving me a headache."

Meanwhile…

Naruto came to the door leading to Danzo's office, knowing full well that the old war hawk would be in there getting ready to try to remove the Nine Tails, quickly moved his hand forwards and said, "Shinra Tensei."

The door fell in, making Danzo turn to see the Rinnegan in Naruto's eyes. The war hawk quickly uncovered the Sharingan eye in his head and pulled out his ten Sharingan arm that had the face of the first Hokage on its shoulder. "The Rinnegan. The eyes of a god. Child, you are full of surprises. I must have them at once."

Danzo slammed his hands on the ground. "Wood Release: Tree Bind Flourishing Burial."

A giant tree started to form around Naruto.

Naruto quickly used the Preta Path to make a dome around himself. The tree grew around him. He wasn't tied up, but he was still trapped inside of the tree.

Naruto quickly closed his eyes and made a Shadow Clone and, without opening either of their eyes, they charged and made one really big Rasengan. He dropped the dome and Naruto and his clone pushed the Giant Rasengan into the tree, making a hole big enough for him to get out.

The Shadow Clone dispelled itself and Naruto jumped out to Danzo's shock.

Naruto formed an incomplete Rasengan in both hands and charged at Danzo saying, "Don't underestimate me."

Danzo pulled out a kunai and charged it with wind charka to make it a full-sided sword. "I won't. Wind Release: Vacuum Blade."

He held his wind sword out and used it to hold back to two Rasengan, forcing Naruto to jump back and dispel them.

Danzo looked at the boy. "He's had the eyes of a god for under an hour and has already learned how to use them to their fullest. If the teachers at the academy had bothered to teach you right, no doubt you would have been top of your class. But, with those eyes being what made the Sharingan, all 11 of my eyes are useless against you. No part of me would dare under estimate you, boy."

Danzo quickly slammed his hand to the tree around him. Then, he went up. He was using the tree like an elevator to get to the village and, once there, Danzo made the tree open only to see that the shinobi were free and defeating his Root ANBU. "The boy has ruined my master plan. Damn him. Well, I guess the apple doesn't fall far from the tree."

Back in Danzo's office, Naruto removed his jacket, took out a knife and quickly cut his own wrist. "Don't heal this, Kurama. I'm going to use the Animal Path to summon you and I want us both to bleed to prove we are not one in the same."

Naruto saw that the cut wasn't healing. "Good." He did the hand signs for the summoning jutsu. "Animal Path: Summoning jutsu. Yang Kurama, the Nine Tailed Fox." He then slammed his hands on the ground making smoke cover the room.

Up in the village, the Nine Tailed Fox, Kurama, with the Rinnegan in his eyes and a bleeding right paw popped out of the ground with a bleeding Naruto on its head.

Danzo's eyes widened. "Of course. The Rinnegan made the Tailed Beasts. It would allow you to summon and control one."

Naruto just smirked. The sight of both the Nine Tails and himself bleeding was enough to prove to the villagers he and the Nine Tails where not one in the same, making all of them feel sickened for the way they treated him and become fearful of the revenge he could unleash upon them with the Tailed Beast under his power and with the Rinnegan.

Danzo growled. "You are a bigger thorn in my side than your father ever was, boy."

Naruto smiled. "Thanks. Now, Kurama. If you would be so kind as to finish this bastard off."

The Nine Tails smiled as it thrust it's claw through Danzo's chest, only for him to vanish.

Danzo appeared in front of Naruto and cut the boy across the chest with his wind sword.

Naruto held his bleeding chest as he fell off of Kurama and saw that one of the Sharingan in Danzo's arm was gone. "How?"

Danzo smirked. "Izanagi. A jutsu only usable though the Sharingan. The Sharingan transforms death into a genjutsu by altering space time, effectively giving the user another life at the cost of one Sharingan eye, and, as I have ten more of them, you would have to kill me 11 more times to be done with me."

Naruto dispelled Kurama so that he could return to the seal and start healing him as he said, "That's cheating."

Meanwhile…

Shinji just made it out of the root base and in to the forest where the exit brought him , when a Root ANBU with sword in hand jumped at him.

Without thinking, Shinji used the fox hand sign and said, "Shadow clone jutsu."

A clone of himself then appeared before him. However, it was quickly cut in half by the Root Agent's sword, making it go poof.

Shinji just looked at himself, shocked but grateful. 'Naruto, if I see you again, I'll need to thank you.'

Without thinking, he quickly formed an incomplete Rasengan in his hand and rammed it into the Root ninja's gut, sending them flying back into a tree.

Shinji blinked a couple of times. "I can freak out about this later. Right now, I'll try not to die." Five more Root shinobi appeared.

Shinji gulped as all five drew their blades. "Can we just talk about this?"

All five sword-wielding Root shinobi ran at him and, out of reflex, Shinji made hand sign. Then, as the Root ninja were about to all slash at him, Shinji switched places with one of them, making four Root agents kill their teammate.

Shinji backed away, scared. "Look. I'm sorry. I didn't know what I was doing. I didn't mean to kill your teammate."

Root shinobi one pulled his sword from the fallen Root shinobi. "He was a loser. Simple as that. Died to complete his mission and, unlike you, we of Root feel no emotions to weaken us."

Root ANBU two pulled his blade out as well. "You are clearly a civilian, yet you were able to pull off 3 jutsu, two of which are high ranking in power. Even without emotions, we must admit you have skill."

Roof ANBU three pulled his sword out of his fallen teammate as well. "We underestimated you simply because you had no shinobi headband. A mistake we won't make twice, boy."

The final Root ANBU pulled their sword free of the new Root ANBU corpse. "For we are Root. Making sure Danzo gets the power of the complete Nine Tails is our mission and we will complete it at all costs."

Shinji's eye's widened. 'What kind of cold-hearted monsters are they?'

Yin Kurama quickly replied with, "The same kind as your father, Gendo, who, in the name of power, killed your mother."

Shinji's eye's turned blood red as his pupils became slitted like a fox's. His teeth became fang-like and his nails became claw-like.

Root ANBU one spoke. "He is tapping into the Yin half of the fox's chakra. Plan Beta."

All four Root ANBU then ran around Shinji so fast that he couldn't keep up. All he knew was they were using their swords to draw something on the ground.

That something turned out of be a four-pointed star and all four Root shinobi stabbed their blades into the ground on which a point was drawn and yelled, "Four Star Restraint Seal!"

The star on the ground then glowed white as white glowing chains came out of the ground and wrapped around Shinji, forcing him down to his knees with his arms trapped at his sides, unable to break free.

Root shinobi number two let go of his sword as he watched Shinji struggling to get free. "Your struggling is pointless. This seal will hold you where you are now, unable to move your arms to use jutsu until lord Danzo comes to remove the Yin half of the fox from you, which will kill you."

Root shinobi three also let go of his sword's handle as he saw that Shinji was still struggling. "Trying, even when you have no hope to finish your mission, to escape Danzo. You would have made a fine shinobi, kid."

Shinji growled as purple chakra stormed around him, thinking, 'I can't die here. If I do, then I will never get home. I'll never see Misato again. Why is she the first one I think about? No. Stop it, Shinji. Now isn't the time for that. Get mad, damn it! The madder you are, the more of the demons power you gain.'

Shinji became to think about everything bad that had happened to him and how it was all Gendo's fault. This made him enter the one-tailed chakra shroud.

The first tail wasn't enough to break free, so he thought about the good things he had. Misato, his friends, Toji and Kensuke, and how, if he died here in this world, he would never see them again. This made his anger grow, making him enter the two-tailed shroud.

This still wasn't enough to break the chains, so he thought about Naruto's life. All the crap he was put through by the villagers and how he didn't want any payback and, instead, wanted to protect them. The boy had to be some kind of saint, to not be evil after all the hate he went through. Thinking about this led to Shinji entering the three-tailed shroud, making a mini hurricane form around him.

Shinji roared as he lifted his arms and the chains started to give, allowing him to move his arms up an inch away from his side, and he kept on fighting.

Root ANBU number one grabbed his sword's handle. "We have underestimated the kid once again. He's drawing in more of the Yin Nine Tails' power."

Shinji finally was able to push his right hand forwards, sending a chakra arm out that knocked one of the sword blades out of the ground, breaking the seal and making the chains vanish.

The four Root ninja grabbed their blades and quickly charged at him, but Shinji swung his claws forward, leaving four deep gashes in the chests of two of them and making them fall down and bleed out.

The last two didn't get any better as the chakra tails hit them in the head so hard that it broke their skulls, making the two fall to the ground, dead.

Shinji then passed out as his chakra shroud left him. He had used way too much chakra on the first go round.

As soon as he was unconscious, Shinji found himself in front of the fox cage and he yelled out, "I HOPE YOU'RE HAPPY! I'M A MURDERER, THANKS TO YOU!"

The fox chuckled. "Boy, in this world, everyone uses what you know as the A.T field for battle. Death in battle is a normal thing. Besides, you acted in self-defense. The courts in your world won't charge you for murder. Plus, you feel bad about it. A true killer feels no grief for the ones they killed. It was no different than what you made the Evangelion do on a regular basis. After all, they are just clones of the Angels."

Shinji bit his lip. The fox had a point. He did feel grief, so he clearly wasn't a monster, and he did make the Evangelion kill other Angels before. He was no different from the demon locked up before him, and that sucked.

Shinji looked down and made a tight fist. "No. I don't care. You may have piloted me into killing my own kind, like I do my Eva-01, but other than that, we are nothing alike, demon. I fight to keep others safe. You just want to kill!"

Yin Kurama smirked. "Your mother wanted me to help you get a backbone and grow a set. Well, we got some backbone, now. Let's work on the growing a set part."

To be continued…