In Equestria Twilight had her wings spread as she battled with Sombra on top of a crystal spiral, the princess of friendship, fired a beam form her horn only for Sombra to smirk as he summoned a crystal wall to protect himself.

Twilight looked at Sombra as she growled, "How did you return!? What are you after!?" She clearly wanted to know as they were nowhere near the crystal emperor.

Sombra smirked as he said, " Why would I return to a place that holds what can destroy or trap my race the umbra! This unicorn shell is the only reason I could stand there! After my second defeat I wasn't destroyed just be in the prison with my fellow shadow monsters were I had the displeasure of meeting my mother! She is evil! And that is me talking so you know she's bad!"

Twilight nodded as she blinked and said, "Ok I'll believe your mom is eviler then you but you still haven't answered how you got out or what you are doing!"

Sombra growled as he said, "I was getting to that Princess!" he spat with venom, "Simple butt after a long time of having my mother show me how she killed the only friend I ever had for years I snapped destroyed my race! Absorbing their power into myself so I can leave! Not just the trap but Equestria! This spiral is a portal spell meant to send me to another world so I can start over! I repeat what my plan was to peacefully leave! Then you showed up and fired energy beams at me!"

Applejack's voice form down below yelled out, "HE'S TELLING THE TRUTH THE ELEMENT OF HONESTY IS TELLING IT TO ME! HE WAS JUST GOING TO PEACEFULLY LEAVE!"

Twilight looked down before trying to flow off as she said, "Oh… I guess sorry then! Goodbye!" she then turned but she hit an invisible wall and Somrba rolled his eyes.

The former King then said, "you foolish mare! You know magic this kind of transport spell has timers it's to late to leave it and not be taken away! Because you thought I was up to know good trying to ruin your little kingdom you are now stuck going to were ever it will send me! How can such a clear pony also be an idiot! I mean you let discord walk around after he basically ripped reality apart twice! That's way worst then anything I did! I was just a jerk of a king, then a shadow wanting to be solid again!"

Twilight's eye twitched as she said, "OH HELL NO YOU TURN THIS OFF!" they were then domed it was red but turned purple.

Sombra sighed and said, "To late! It is about to go and it's been corrupted by a second pony! No telling what can happen! This could be the end of both of us! Are you happy princess!?"

before she could say anything the spiral tower of dark crystal vanished taking the two ponies with it.

At that moment on earth In a place called Nerv.

Misato was kicking Eva-01 as she screamed, "GIVE HIM BACK! YOU SPIT SHINJI OUT RIGHT THE HELL NOW YOU PURPLE BASTARD BEAST!"

Ritsuko was about to pull Misato back but the eva's mouth opened as a black slime start to ooze out and the bottle blonde dove saying, "I THINK IT LISTENED!"

In a moment a jet of Black slime came out of it's mouth hitting Misato making her scream and out came something strange.

It looked like a light Grey winged unicorn with Black semi ethereal looking mane and tail, it's horn was smooth and curved he opened his eyes dark purple eyes.

His bat like wings spread as his roof reached for Misato as it spoke in Shinji's voice, "Misato!" before he blacked out.

The Slime covered Misato's eyes widen.

Everyone was stunned and confused but All Gendo was thinking was, "this was not in the scenario."

Later on Misato was cleaned petting the scared Shinji to try and keep the Alicorn calm as he passed out and sighed sadly asking herself, "What did that thing do to you!"

Unknown to them the unseen unsolid bodies of Twilight and Sombra were watching and Sombra rolled his eyes, "It wasn't the beast it was Twilight assuming I was trying to destroy something!"

Twilight hung her had in shame about it, as this clearly wasn't the world were a pony would fit in but Sombra said, "Sense our current state is your fault for gunning the gun as this humans say, you and I will gather information, we are anchored to the colt so we'll be able to interact with him and hopefully figure out how long we'll be noncorporeal-entities."

Later on Shinji was using his hoofs to open a jar as Ristuko blinked unsure how he was holding it her eye was twitching as she watched it as Misato rolled her eyes, "He's a winged unicorn Ritsuko! You aren't going to understand the magic of that!"

Ritsuko was about to yell about there being no magic but in a moment Shinji's left wing head her in the face as he said, "Try to find an answer to how I end up being a mythical creature other then magic then we'll listen to your you nag!" he said rudely like something deep inside him was making him grow a spine!

Misato blinked at it and said, "So this is what it takes for you to grow a spine! Or is that insanity!?" She asked worried for Shinji.

shinji's ears twitched as he said, "Asuka's coming I can hear her! Her voice is like having a drill in each ear!" he yelled in pain!"

Asuka then came in and said, "So the invisible Baka returns again, well I…" she then opened her eyes and she blinked as she noticed the unicorn with bat wings. Her eyes widen and her jaw dropped like her brain just broke!

Rei then came in and she looked to Asuka in confusion and said, "Pilot Asuka, we were told Pilot Ikari came out mutated by the Eva.. grant we had no idea of knowing the mutant would be this cute.. hold on I am going to go get a brush and some apples!" she then did something that shocked everyone she smiled as she walked off.

Shinji then yelled out, "I AM NOT A PET!" he sounded mad.

It was at that Point Asuka broke out laughing and pointing, "the invisible Baka right!? No way you are piloting again! Might as well be a pet as I don't see any other options for a talking horse with wings! I mean you're a fucking pegacorn!... " her laugher was then cut off as she was bind to a wall and lift up by a purple glow.

All then looked to Shinji growling showing a fang filled mouth like Sombra's his right eye was now red, the sclera green and purple mist escaping the corner of the eye, his horn was glowing purple with sparkles of red and green in it.

Shinji then growled his voice sounding murderous, "YOU WILL NOT MOCK ME BIPED!" it sounded like he was using biped as an insult, as he growled Ritsuko's jaw was dropped at what she was seeing as shinji was clearly moving objects with his mind.

Misato then tried to move close to the murderous sounding winged unicorn and she pet him saying, "Shinji let her go! This isn't you!" That is when he turned and his dark magic showing eye looked her right into the eye making Misato jump as he said, "in case you haven't notice I'm not me anymore any dam way! And she sadly made a point I'm not human! Anymore! So why should I bother acting like one!"

Misato blink and got down putting a hand on his face as she cried and said, "Please Shinji you don't have to be a monster!"

Shinji's eye returned to normal as he dropped Asuka who ran out of the room in fear screaming, "MONSTER!"

Later that night in what couldn't only barely be called a room Shinji was struggling to be comfortable in his sleep the only reason he was a sleep was he was to tired to be awake.

Shinji found himself in his dream facing Sombra and Twilight as both said, "We need to talk!"

After a brief conversation Shinji looked to Twilight his eye going dark magic again as he yelled out, "YOU ARE THE REASON I'M LIKE THIS!" he yelled in rage.

Twilight backed away in shock as Sombra laughed and said, "As much as I would like to say it's her she isn't! You are like this as the Eva was a beacon for the spell she messed up! And the reason it's a beacon is because it's abomination! I've found out all about it! They combined science version of dark magic, with piece of those monsters out called angels to make brainless giant humans you crawl inside of and what makes them extra horrible is how they pick a pilot Do you want to know why only you can control that purple Abomination!?"

Shinji looked at Sombra growling as the former king said, "the Eva can only be piloted by the son of the women who's soul it first absorbs!"

The male left eye teared up as he let out a shocked, "What?" Twilight looked horrified.

Sombra chuckled as he said, "I don't know why you are shocked you where there that day! Here let me cast a memory spell!"

A window showing the mirror of his mother crawling into that thing and being absorbed then played and Shinji's eyes widened.

Twilight was about to beg Sombra to stop but Sombra covered her mouth, "why did she do this!?your parents are part of a cult! Who want to use the angels and the Evas to destroy all of humanity to merge all of there souls into one being to make a god! I repeat your parents abandoned you use you as a pawn to end the world!"

Twilight backed up and covered her hoof with a mouth as Sombra finished, "And I thought my mother torturing me with the memory of her murdering my only friend form her point of view was bad! So no Twilight isn't the reason you are an alicorn! It's because your parents want to end the world!"

Shinji then screamed making the world around them shatter to a twisted version of the nerv base as he screamed out, "NO THEY AREN'T MY PARENTS! MOTHERS CARE FOR THERE KIDS! FATHERS TEACH! THEY NEVER DID ANY OF THAT! THEY ARE NOT MY PARENTS THEY AREN'T EVEN FAMILY! I HAVE NO BUCKING FAMILY!"

Twilight was going to try and run to him and comfort him but Sombra smirked, "but what about your sister?"

Shinji looked confused as Sombra brought up the image of Shinji's mother and made her hair blue and Shinji gasped out and said, "Rei!" sadly.

Sombra nodded and said, "your Gendo missed his wife now that she was the engine to that beast so he tried to make a copy but he couldn't find enough of her, so he mixed it with one of those angel parts to make a daughter, the child he always wanted, Rei even looks like her, her hair and eyes being fragments of her angel side! You have a sister colt, and he is one of the monsters you have been told to kill! What are you going to do about it?" he asked.

Twilight was about to scream about this being enough, but Shinji yelled out, "NOT WHAT GENDO BUCKING WANTS! I see it all now! He wants me to be the one to want to destroy the world! He was probably going to tell me she was my sister after I had to kill her! To break me into breaking the world! Well it won't work! He won't break me! He won't hurt me anymore!" He won't hurt anyone! I'll make sure of this!"

Sombra smirked as he said, "Good then the umbra instinct for destruction is now target on only things that deserve it! You won't end up like I did!" he then trotted off vanishing.

Twilight was stunned as she walked over to Shinji and she said, "I can teach you about magic, like for clouds are now solid for you and a heat spell for now ."

Shinji blinked as his dark magic eye turned back to normal as he raised and eye.

the next morning when Ritsuko went to Awaken Shinji her jaw dropped for there he was sleeping on a cloud she stared her brain seeming to shut down, at the image.

Elsewhere in a meeting with Seele

Seele one spoke up form his tablet as he said, "What became of Gendo's Son was not in the scrolls."

Two then spoke up, "and the eva getting and S2 engine wasn't in it either!" he spoke up.

three then asked rudely, "what are you implying?"

four then spoke up, "that should be clear the boy as all lilin he had the fruit of knowledge, and he was absorbed into a beast holding the fruit of knowledge, exposure to both may explain his new form!"

Five then spoke up in rage, "that is Blasphemy!"

Six then spoke up, "We have no idea what the originals looked like! And as we did not plan for the two fruits to meet it isn't blasphemy it is a possibility!"

seven spoke up as well, "it is point we may have to adjust our plan in case it be true!"

eight then said, "Moving aside arguments that this will start, I think it's safe we agree the child's abilities most be studied and samples of his DNA most be taken to see if it can be copied and what it holds!"

Nine spoke up and said, "I already had a spy gather a hair we tried cloning it refused but we did see something interesting witch I am now sending you all"

Ten yelled out, "THE DNA REPAIRED IT'S SELF IN SECONDS STOPPING THE CLONING!"

Eleven then spoke up, "with such healing infinite life is possible... I am changing over to team adjust."

Twelve then spoke up and said, "We'll have a vote on if it's time to adjust next meeting!"

To be continued.