Fallout Equestria: Shinobi

Meanwhile a certain Pegasus had just fled from the Enclave after she was condemned of a crime she did not commit, her coat was Twilight Lavender, she had a tri colored stripped mane and tail, dark purple in the middle, sky blue, and green tea. Her eyes was a brilliant coral orange she had a pen and book cutiemark, she was a writer along with a lawyer. She was a genius in her field, but she made one crucial mistake. She tried to sue to the Enclave for the murder of hundreds if not thousand of ponies, but in doing so she made her self a target, she became the most hated pony in the Enclave in days.

She fled to the wasteland hoping to evade her pursuers, she succeed but she was shot by a lightning rod in her escape. It ran through her heart almost instantly, she would have died that second, if she had not landed in the garden of a certain Nine-Tailed fox.

From that moment onward she was saved.

Most of the Akatsuki recruits were Ex-Raiders, and while this was true, some were not. Some were just random homeless or poor ponies who were close to death when Naruto found them. One pony was a doctor, what the wasteland considers a doctor, Doctor Black was his name. He had a onyx black coat, orange red mane and tail, and Spanish green eyes. He had a Health potion Cutie mark. He was the by far the most important pony in the entire wasteland at this moment. He had already cracked the way to make Cybernetic limb replacement, he also asked a few raiders who wanted to become more a physical force for the military if the wanted to become cyborgs.

Today Doctor Black was working on the Pegasus Naruto brought in, she had to geta replacement heart, which was biomechanical. It would be a few days until she healed enough to awake.

Naruto looked at his book he was reading when the random pegasus entered his garden, he was getting new knowledge from his Paths of Peace, they made a new friend. Along with a new base the Akatsuki would use, but how?

Naruto's eyes closed as he focused on the images, 'I need a loyal army, a army of everything I can get. Dragons, Unicorn, Pegasi, Griffin, Earth ponies, and Zebra.' His eyes narrow, 'Dragons would require me to clone them, which with Doctor blacks help it should be possible, Griffins can be hired. Pegasi will be the most difficult ones to make, clones will not be treated as weapons but as living people.' He nods it will take a few months to create a clone army, each clone will need to have implanted with memories via Kotoamatsukami.

Naruto pulled up his Pip-buck and typed a message to Doctor Black. He gained a response a few minutes later, he grinned at the response. "All you need is biological material?"

He sent a few messages to his Paths, their Rinnegan eyes flickered. "Good, lets make sure these clones are treated as citizens because that's what they are."

Zephyr's eyes widened slightly and smirked, none of the other paths changed their expression, only he did so. 'Only issue I see with your plan boss is the fact we have to find bones or a living dragon, and fighting a living dragon is difficult for infantry.'

"Okay team we are close to our location." He looked to Avalanche, "Right?"

He nodded, "It may only be a few few hours walk at this pace." He stated as he watched the ground blur under the Power armored ponies hooves. they were going very fast for any normal pony but he assumed it was the armor they wore, he heard it enhanced the body greatly.

Not soon after that they slowed down when they reached a hill, Zephyr tapped his metal hoof on the ground causing the entire team to jump off the Armored ponies back, only one left was Avalanche. Who only looked around confused. Zephyr sighed, "You can get off," he nodded and jumped off.

Each one of the team members besides Jar-nee who held no weapon besides a small knife, Sipho levitated out her suppressed auto pistol, Zephyr armored horn lit up levitating out his Tungsten/Titanium alloy sword. Lo-mi's horn also lit up twin heavy revolvers floated besides her assault rifles. They started their short trek until they arrived at the old decaying shack, it had the name 'Property of Pony Hills' They looked to Avalanche who smiled slightly.

"We are close, this is the main entrance to the stable, how the pre-war ponies entered." That caused Zephyr's eye brow to raise behind the helmet. "The other entrance is in a cave, it is the one that was created into a animal den."

Naraka's eyes widened slightly, "How? Stables were supposed to have only one entrance!"

Avalanche sighed, "To be honest I think it had to do with one of the ponies placing a bomb on a wall and detonating it, they wanted to escape, the Overmare went insane from some sort of drug. She became a dictator, killing ponies who did not listen, there was this huge rebellion. They created hoofmade weapons and bombs, one went off and boom the wall collapsed. As if on instinct the ponies inside fled, we think it was created on purpose, because we found skeletons in the cave when we lived there."

Sipho nodded, "Sounds like an Stable-tec Experiment, they likely wanted to see what would happen if they created a monster. Or the way to make enemies into disloyal soldiers." Zephyr head bobbed to say he agreed.

Their walk continued, they soon found a huge opening in the rockface. Zephyr's eyes narrowed as he clicked on his Power armors headlights, when La-ma and Lo-mi noticed they to activated their lights. Zephyr stood to the front, Naraka to his right, and Lo-mi to his left. La-ma was behind him, unable to use her weapons. Sipho vanished in a flicker of light, along with her suppressed 9mm pistol.

The team moved forward, prepared for battle, they gained none.

Instead they found streaks of blood on the ground, fresh from the color, along with random Manticore limbs strewn apart. Avalanche gaged, while the Team remained stoic and unfeeling, their eyes focused entirely on their situation. Only the eyes of Jar-nee looked at the injuries on the limb determining what killed them, it was not pony or more Manticore. His voice pierced the silence, while they shared a mind and vision they did not share their thoughts. "Boss, there is something worse here then even Hell hounds."

Zephyr's eyes never stopped looking around, "What?" he was curious of what was so important.

"Dragons." He hissed, "They are what killed them, this is bad boss." Zephyr could only agree, this was bad, they were not fit to defeat a full sized dragon.

"How bad?" His eyes narrowed further, Knowing his own path, Human/pony path was the weakest and most useless in a combat situation he chose to keep his helmet on. His powers were created for interrogation, not combat.

"Bad bad boss, these dragons are not mentally sound, they are obviously not ghouls but insane likely." He wanted to use his path, but he currently had no animals to summon. An idea pops into his head, he would use the Dragons as his paths while also allowing Naruto to sample their DNA. He sent his idea over and the others nodded, knowing they only needed one Chakra receiver in the target for them to useful.

"Great, we may need to use our other powers." The paths nodded knowing it was true, La-ma had already released the Blood seal to keep her eyes and real appearance hidden, Her Rinnegan and Sharingan eyes glowed behind the helmet, her armor would keep her from visibility but it would also prevent her from using her powers.

Noticing the extra clarity in La-ma's vison the other's eyes widened.

Before long they found a huge opening inside the earth, not far away was two giant dragons.

Sipho appeared before them a scowl of her lips, "What took you so long?!" La-ma scowled behind the helmet, "I been here since 10 minutes?"

Knowing this was true Zephyr sighed, "Its fine, what have to found out?"

Sipho jerked her head to the sleeping Dragons, "They are actually mates, from what I have seen they arrived maybe a days hours ago. They were so tired they feel asleep on the spot."

Avalanche's eyes widened, "What killed the Manticore?!"

Sipho's eyes widened, "Wait what?" She looked to Zephyr who nodded, "They were alive when I passed them! That's weird, could you determine how they died?"

Jar-nee hoof rose Sipho looked at him, "Dragons." Her pupils shrank.

"B-but, how?!" Zephyr's eyes looked around his Sharingan/Rinnegan eyes looked around separated from the helmet. "When I arrived they were asleep, and the Manticore alive! it was likely 2 minutes before you arrived. So how could they move so quick without my knowledge?!" She was a Assassin trained by Naruto to caused mass destruction without being seen, so how?

Jar-nee's eyes landed on the sleeping dragons, "Are we sure they are asleep? Not just faking it to lower our guard, or even distract us?" Sipho's eyes widened to the size of dinner plates. Almost all the ponies looked to the dragons with new horror.

The new terror filled silence was soon removed by the deep throaty grumble. "Damn, my new dinner is smart." The two dragons lifted their head to look at the ponies, the two sets of slitted eyes landed on them. Sipho was not dealing with this shit and released the illusion around her body giving her Sharingan/Rinnegan back. Jar-nee did the same but his eyes widened.

"They are not feral! it was a Trick!" Almost instantly all the illusions around the paths disappeared.

Sipho looked at Jar-nee, "Can we use Kotoamatsukami?!"

He shook his head, "No their mind is to powerful, that's what I just tried, we will have to weaken or knock them out for it to work. Either their mind is to powerful, unlikely, or their mind has a resistance of illusions!" Sipho nodded.

Zephyr's eyes narrowed, "Weaken them?"

Jar-nee nodded.

Zephyr's face turned sinister, "Alright we can unleash our powers now."

Sipho, La-ma, Lo-mi all nodded and spoke. "Right!"

Sipho raised her hoof towards the dragons, they raised an eyebrow and chuckled.

"What are you going to do little pony?" Sipho smirked.

"Death and despair for you, Shinra Tensei!" As if the words were spoken by god an all repelling force erupted from her hoof, instantly the dragons were slammed into the wall at the other side of the cave. "Go!" La-ma launched forward using her Asura path to pull her Power Armor into her eye, Metal wings sprouted from her back. Lo-mi stayed by the other ponies prepared to defend them.

La-ma appeared before the dragons who just now collected themselves, her hoof folded outward to show a glowing cannon barrel. "Asura attack!" The Cannon exploded with a huge 20 feet wide Chakra beam, it impacted the dragons and imbedded them in the wall. They quickly regained their sense and swatted the drained La-ma from the sky, she slammed into Sipho, who was instantly pushed back. The other ponies opened fire on the dragons, Naraka looked at the huge gash along La-ma's synthetic skin. Her body was sparking from the injury. Knowing she could not use Naraka path with Avalanche here she was in a bad spot,

Avalanche's eyes were wide, he was seeing a pony spark, she must be a cyberpony! La-ma's body started to heal, "Damn!"

Sipho nodded, "They hit like a truck!"

La-ma's eyes narrowed, "Could your shield block it?" Sipho scowled and shook her head, "Why not?!"

"To much power, he would shatter it."

While this was all happening Jar-nee had snuck up behind the Dragons, they ignored him and focused on the main threats. He had created a shadow clone and kept his eyes closed so they would not be able to see what he was doing.

When he arrived behind the dragons he summoned a few Chakra receivers, his eyes narrowed before he smiled brightly.

He waited for the right moment to strike.

Back in the fight, Sipho's eyes narrowed, "I can use it again!" She pointed her hand to the dragons, they moved aside attempting to flee the effect, but this time she was using something else. "Bansho Tenin!" The Twin dragons were pulled by the unstoppable gravitational pull. Before they reached Sipho though La-ma jumped forward and her back split open to expose twin gargantuan cannon. "Fire!" She screamed at the top of her lungs, the cannons roared as they launched twin beams of chakra into the Dragons chest, both dragons were sent flying.

They slammed into a wall unconscious. The force was so incredible it left cracks across the entire cave, it would collapse after another attack.

Sipho's eyes widened at the cracks, "Get out I will send them to Naruto!"

Jar-nee yelled across the cave, "No I want them!"

Everyponies eyes landed on him wide as saucers, "No! Naruto needs them more!"

Jar-nee was about to yell back when he frowned. "Your right."

Sipho looked to the Dragons, "Kotoamatsukami!" Her only Mangekyou Sharingan eye flashed and the twin dragons were disappeared a moment later. The team quickly fled from the crumbling cave, the battle was just to much for it to sustain.

Naruto's eyes opened when the Dragons appeared, he was confused as to why they appeared here but he assumed it had to do with the Rinnegan. Naruto looked into their now opening eyes, they looked at him with awe. It would seem the Mind-control worked wonders, "Welcome to the Akatsuki, Blazing moon, and Cool Sun." Blazing moon was a Midnight dragon with black highlights, his sister and mate was a Powder blue and Ruby red highlights. Their eyes were the exact same color, a brilliant silver.

"We are happy to join, what will our jobs be."

Naruto chuckled, "You will be one of our main assault units, don't worry though we will never let you die unless you wish it." He was secretly depressed he had to take a route to gain Dragons on his side, the Griffin will be easy. All he had to do was hire a Griffin Merc group, he then could fuse the DNA with ponies, making Hippogriff. He will also soon fuse Dragon DNA with pony DNA making Hybrids. He may use Changelings if he can get the chance to.

His eyes narrowed on the ground, so many idea's and not enough time.

Back with Team, they rushed out of the cave, while it was not going to fall they did not wish to risk it.

When they reached topside Zephyr was mentally scolding Jar-nee, who by now looked depressed, but shortly gave it up.

They walked away from the cave and towards the little hut the Stable resides under. The hut still looked abandoned, and old. Pushing the door open, they entered. It was bare with nothing inside, they could see the entrance to the stable below the floor with nothing covering it. It would seem the Stable ponies or maybe wasteland ponies uncovered it, by taking everything from the hut.

Zephyr's eyes narrowed on the entrance, he found nothing special about it. "Good, lets move in, I wanna find out if the Akatsuki will find this place useful." The team nodded and started to move down the stairs, each one covering the other.

When they exited the stair case they entered a small room with a large gear shaped door, it was off the hinge?

Sipho's eyes widened, "Geeze."

Zephyr nodded, "Lets enter, keep your guard up, Avalanche are there supposed to be inhabitants?" He shook his head unsure. Zephyr took it as a negative, "Good, check the place for anything or pony. Even if they think no pony lives here we will keep an eye out." His team nodded, Sipho vanished again using her Pip-buck Stealth Module.

Naraka stayed by Zephyr's and Lo-mi's side. La-ma stayed with Avalanche and Jar-nee.

Sipho walked through the stable invisible, her eyes exposed still from not activating the seal allowing her to see with great detail. Her eyes wondered the walls floor and ceiling for any sign of living creatures or maps. She soon found one, The top floor was devoted to Overmare, security and military. The right floors under that were civilian housing, the left floors were like a town, kitchens, stores, science bay, and even a armory. This place was not meant for normal civilian housing, this was obviously created for an experiment. The Bottom floors were tech, engineering, and the farm. There was also extended wings each one made for something special, one was for Cyro, stated to hold around 100 pre-war ponies. This would be useful, the other wing had vehicles, along with a tunnel out? The one to the other side was a empty hangar obviously meant for a Raptor or Rex. The last one was a full Hangar with tons of smaller flight vehicles.

It became obvious the more she read, this was not meant for Civilian use, but instead a military foothold. Why? Why would Stable-tec require a Military foothold?! She looked at the map for a few more seconds for anything new, when she found nothing she booked it towards the Overmare's quarters.

Her path lead her to Security, she noticed the more and more common skeletons the closer she got. Soon the entire hallway was stacked with Skeletons, then she found out why, there was a military Barricade, with two destroyed turrets, that looked easy to fix. There on the walls were skeletons wearing old torn military uniforms, along with ponies with Stable-tec Security armor. Each pony on the side were armed with automatic weapons, each one empty except for maybe one or two rounds. It was obvious by her eyes a war happened here, a short war brutal war, the defending force's bones had been shattered by a powerful force, and even their skull was crushed. Their bones had a few pony teeth bit marks on them.

What the hell happened here?! She rushed past the barricade, her eyes sending everything to her Team, She noticed the old blood trail on the floor. It was many not one, there was many small trails or drips of blood on the ground, she followed them to where ever they lead to. She soon noticed more skeletons of guard ponies, and more regular inhabitants, so many bones. The trails of blood tapered off as she found where the skeletons the blood lead to, Soon it was only one small trail of blood that was slowly getting smaller and long distance between drops. She followed the blood trail until they suddenly turned into a room, following it she failed to notice the Overmare sign above the door.

When she entered she saw something that would shock the entire team, there in the room was the skeleton of a pony. It was hanging from the ceiling, there was pictures strewn about the room showing the act frame by frame, as if it was video taped. The Pictures were everywhere, it showed the living Overmare who was a gorgeous unicorn mare, She was a platinum white along with a Red purple mane and tail, her eyes were a Mango Orange. She was pretty, she also had a very kind expression, even when a Earth pony stallion walked in. Who was Light golden yellow, along with a Shamrock green and hunter green striped mane and tail. His eyes were dilated and crazed Maximum Red. His eyes were blood shot and obviously drugged, he charged the defenseless mare. The pictures after were gruesome, first he raped her until she could no longer resist, then he started to stab her while doing so. He finished her off by tying her to the ceiling for display. The stallion slit his own throat and still alive made the mare drink it. When he bled out he fell over onto his own knife through the heart dead.

Sipho's eyes were wide and filled with tears, but she had to ignore the emotions she should not be able to feel. She walked to the Overmare's terminal, and her eyes bugged out.

"No wonder she was smiling before this whole thing." The words 'Stable 59 Successful, Military wards sealed until Akatsuki intervention.' were on the screen. "They were waiting on us, they were just to early." She typed the password she saw the Overmare type in, it flashed green and she was allowed entry.

She clicked the button that stated, 'Unseal Military ward Y/N" She clicked Y and heard the stable churn, the lights flickered once before dimming. She exhaled, and looked at the skeleton, she saw the picture of her being raped, and stabbed, she only smiled. "Odd, no mare would smile while being raped or stabbed, even if she was successful any mare would cry or scream, so why?" She soon noticed the lack of a second skeleton, "Wait where is the stallions skeleton?" 'Wait do not tell me.' Checking the skeleton she noticed the fact the skeleton had a hole in the sternum, indicating a stab or bullet. This was the body of the Stallion.

"She survived?! How?!"