Disclaimer: See the Prologue

A/N: Sorry for the delay. This is a big chapter after all…


File #11 – Sterilisation of Tokyo-03


The Black Operatives were a secret organisation set up by the Central Intelligence Agency of the United States of America, better known as the CIA. They were comprised of the most deadly assassins including ex-Marines, ex-secret service agents, reformed ex-cons and other types of personnel that are skilled in the deadly arts including espionage, stealth, explosives and weaponry.

During the Valentine Conflict, they were used for top-secret assignments all over the world, bringing down whole governments, assassinating leaders and forging alliances on behalf of the United States. After the conflict ended, they were brought under the control of the entity known as the G-Man, who was very influential in the United States Senate and with the United Nations itself.

They practically became the G-Man's personal militia, completing assignments handed to them by him. They were responsible for the Tokyo-03 Blackout which allowed the Angel known as Matarael to assault the city and for the Evangelion units to attack, all to further evaluate Third Child Shinji Ikari.

Later on, they were deployed during the Lambda Incident of the Black Mesa Research Facility to 'sterilise' it. That is, destroy the facility using an obsolete nuclear warhead. Only 15 Black Op Assassins managed to escape, most of the others were killed by a Marine named Adrian Shephard, and were saved from being rendered into LCL by the G-Man when Third Impact struck, before being brought into the new timeline created by him by reversing the Impact.

Afterwards, the G-Man ordered Black Operative teams to breach the NERVs all other the world, extracting the technology developed and to silence any witnesses, before destroying them using nuclear warheads.

As for the team sent to the alien infested domain of Tokyo-03, by now have escaped from the confines of the NERV complex, they were given a N2 Mine and the following orders…

NOTHING MUST SURVIVE, HUMAN OR ALIEN…


Tokyo-03 burned. Everywhere innocent people ran from the alien invaders as they tore the city apart, wrecking vehicles and buildings in their blood-crazed orgy of destruction. Headcrabbed civilians strolled down the main street, killing anyone foolish enough to stay and try to salvage what they can.

Regular Japanese Self-Defence Force personnel fought valiantly against the Xenian hordes. One squad, which stood their ground on the main street, weapons going all out and making their bullets hit their marks…

"C'MON, BRING IT ON!" one Grunt cried, firing at a Bullsquid, "YOU F#$#ING SPACE REPTILES!"

They were quickly cut down as the horde swept over them, continuing their rampage.

High above the burning city flew a Black Osprey. Not a JSSDF one, though.

"Holy God," Captain Nicholson said softly, seeing the destruction down below them.

"Roger that," Williams agreed.

"Alpha 1, this is Nicholson," the captain begun, "ETA to site Japan?"

ETA 3 Minutes, the cockpit replied, Better be ready. We're going in hot.

"That's a Roger, Alpha 1," Nicholson acknowledged, "Alpha's 2 and 3?"

2 other Black Op Osprey's followed close behind.

Reporting here, sir.

"Did you get that?"

Yes sir, they replied in unison.

"Alpha 3, is the Package secured on board?" Nicholson asked.

On Osprey 3, the Black Ops looked over at the N2 Mine secured at the back of the craft.

"Yes sir," the lieutenant of Alpha 3 said.

"Alright, let's go over this one more time," Nicholson replied, "We're going to move the Package to the Engineering level of the NERV complex. On the way, if there is anything that breathes…"

He then sounded menacingly.

"Kill it!"

"Affirmative, sir," all Black Ops cried, loading up their M4s.

The Osprey's hovered above the surface structure of the NERV Complex.

There is no visible surface activity around the complex sir, the Alpha 1 pilot said.

"No JSSDF?" Nicholson asked.

That's a negative, the pilot said, Just bodies, wrecked vehicles and more bodies.

'Possibly from that Freeman guy,' Williams thought.

"Alright!" Nicholson exclaimed, "We're going on!"

The Black Ops roped themselves, ready to scuffle downwards to the concrete ground outside the NERV Complex.

Sterilisation is a go, the pilot radioed in.

From the 3 Ospreys, the Black Ops scuffled down onto the ground, before unhooking themselves and priming their weapons.

"Here we go again," Williams said almost lamenting, thinking about his near escape from Black Mesa, "Back into the fray!"

"It's to be expected from now on," Nicholson replied.

The 3 teams of Black Ops, 8 Assassins each, giving the total of 24, moved cautiously though the rubble of the JSSDF encampment.

Holy shit, one assassin said over the com, Only a single nerd in a Hazard Suit did all this?

Williams looked upon the wrecked Mobile Command Unit, and the dent to it's side.

"Including a little help from a EVA," Williams said, before turning to Nicholson who was next to him, "Captain, how we are going down?"

"Through the north entrance," Nicholson replied, "The service lift is destroyed and we'll have to fight our way through."

Williams nodded, "Agreed. 'Bout time we kicked some more alien ass!"

Nicholson smiled at his brother-in-arms' comment, before leading the Black Ops to the northern entrance lift.

"Alpha 3," he begun, "Once we secured engineering, bring the Package in."

"Right away, sir," the lieutenant leading Alpha 3 said.

Alpha's 1 and 2 stepped onto the lift, where Williams got to work hacking into it.

"Going down," Williams said, before flipping a switch and they slowly went down.

As they went down halfway to what can be considered hell on Earth, they went through the Geo-Front…

"Holy shit," an Assassin said.

"I second that," another added.

They looked upon the beauty and the ferocity of the Geo-Front, the shield meant to keep the Angel's out of NERV, but did little in halting an alien invasion and a military incursion.

"Do you think the aliens broke through the Geo-Front?" Williams turned to Nicholson.

"Probably," Nicholson replied, "Or it could be the sewer system leading into the city."

Williams wiped the sweat off his forehead.

"Something wrong?" Nicholson asked.

Williams took a breath, before replying, "This place is giving me a very weird vibe. It's as if I've been here before."

"Here we go," one Assassin muttered, "Williams always gets that funny feeling."

"Shut the hell up, Travis," Nicholson ordered.

They soon reached the bottom, weapons primed with laser sights activated.

"Jeez," Williams said, "This place is pitch black."

The Black Ops switched on their night-vision goggles, where they gasped at what laid before them all...

"Sweet mother of…" one Black Op said softly.

The car park area was filled with bodies, both JSSDF and headcrabbed NERV personnel. Nicholson felt fit to vomit, but he kept it down.

"Advance," Nicholson ordered.

They moved to the front entrance door, which was open. Blackness and animal-like growls greeted them.

"Travis?" Nicholson said.

"Yes sir," the Assassin known as Travis acknowledged, almost with contempt.

"Take point," Nicholson ordered, "We'll cover you."

"Yes sir," Travis said, before thinking, 'What the hell am I getting myself into?'

As Travis walked towards the large opened door, Williams knew about this strategy, which was sending in the most expendable soldier in; he thought, 'I never like that f#$#ass anyway.'

Travis went over the entrance way, seeing nothing but bodies, blood and more bodies. He turned to the others…

"Clear!" he exclaimed.

Suddenly, he felt electricity surge through him.

"ARGHHH!" he screamed, before more blue bolts hit him, causing him to explode.

"RACE-X!" Williams cried.

"OPEN FIRE!" Nicholson ordered.

Shock Troopers ran out of the entrance way, firing their Shock Roaches. The Black Ops fired back, making sure to hit them in the eyes.

2 Assassins were already down, and Nicholson knew he had to end this. He launched a grenade, which sailed across the air and hit them square in the middle, killing them. He then aimed and fired at the Roaches.

"MOVE IN!" Nicholson exclaimed.

The Black Ops then rushed through the entrance, where a horde of zombies greeted them. They blazed away, chipping parts of them.

'God, I hate these things,' Nicholson thought, 'F#$#ing bloodsuckers!'

Suddenly, a bigger Genome zombie tore through, hacking down one poor soul of a Black Op.

"INCOMING!" Williams cried.

The Genome charged, already taking several bullets. It tackled another Assassin to the ground, but thankfully he pulled out his combat knife and drove it into the crab, killing it and thus, causing it's host body to topple over backwards.

Williams helped him onto his feet.

"You alright, Wade?" Williams asked.

"I'll live," Wade replied, brushing the grit off his suit.

One Assassin checked his motion tracker, which scanned over Section 1.

"Something big is heading our way!" he cried.

"Must be a Gargantua!" Nicholson exclaimed, holding his M4 in one hand, "Time to get the Biggie out of the bag!"

He turned towards an Assassin.

"Rhys?"

"Yes sir."

Rhys was carrying a bag, which was slung over his shoulder. He tore it open to produce…A Displacement Gun.

'Thank God for those cold, dead eggheads back at Black Mesa,' Nicholson thought.

The Displacer charged up, ready to fire. Suddenly, they all heard a roar down the hallway.

"Get ready!" Nicholson cried, "Here it comes!"

A red eye protruded from the darkness, following the entire ugly frame of the Gargantua. It roared again and charged.

"FIRE!" Nicholson cried.

Rhys charged up the cannon to full power, before letting loose a displacement portal. It tore into the beast, which then cried out, before disappearing back to where it came from…the Borderworld known as Xen.

"That was easy," Rhys muttered, almost disappointed that it didn't explode into a pile of gibs.

Nicholson smiled and said softly, "Good thing we confiscated that piece of hardware from that Grunt."

He then turned to the Assassin carrying the motion-tracker.

"Status?"

"Section One is clear of hostiles," the Black Op reported.

Nicholson nodded, before turning to his com, "Alpha 3?"

Yes sir.

"Section One has been secured," Nicholson said, "Bring down the Package."

Right away, sir.

Squad Alpha 3, with the N2 Mine on a hover-conveyor, moved slowly past the wreckage towards the elevator, which would also take them halfway down to Hell. One of the Assassins swore he heard faint coughing come from the insides of a downed Osprey.

"Hey," he begun, "Did you hear that?"

"Hear what?" a female Assassin replied.

A cough later…

"That!" the male Assassin exclaimed.

The both of them moved towards the Osprey, where the male stepped into the wrecked passenger section of the helicopter. He then tore open the flimsy door to find 2 pilots. One dead, the other gravely injured, but alive.

"Help…me," the pilot begun, "Please."

The two Assassins looked at one another, before turning to the pilot. The female pulled out her silenced pistol.

"No witnesses," the male said.

The pilot's eyes widened, before closing again as the female assassin pulled the trigger.

'Godd#$# JSSDF,' the male Assassin thought, 'Why the hell did they send them here anyway? Godd#$# bunch of half-asses!'

Soon, they were down the elevator and were walking through the carpack full of bodies. They faces were unflinching as they stepped over the corpses, where 2 Assassins from Nicholson and Williams' squads waited for them.

"You took your time," one of them said.

"Had to put some JSSDF prick out of his misery," one of Alpha 3 exclaimed.

"Thank God you did," he said again as they stepped through, "The JSSDF are a bunch of pussies!"

"You mean 'were'."

The N2 Mine was carted through the facility, it's escorts keeping close to it. Williams was at the front.

"Status?" he asked.

"No activity this level," an Assassin replied.

'Hope it stays that way,' Nicholson thought, 'Or at least until we get to engineering.'

They were before the hallway that leads to engineering.

"Oh Jeez," the Black Op carrying the tracker groaned, "There's shitload of activity down there."

"In that case," Nicholson begun, "We better make every bullet count. Williams?"

"Yes?"

"You got the schematics of the facility?"

Williams took out his Personal Data Assistant and switched to the map of NERV, "Right here."

"You're leading the way," Williams said, "Rhys, you cover him."

"Yes sir," the Displacement Gun carrying Black Ops replied.

They then slowly stepped through into the darkness, goggles on. They then begun walking downward below Section One, where after about a minute of cautious movement.

"Oh…my," Williams said.

The passageway before them was a complete alien habitat, with it's flora coating the floor, walls and the low ceiling.

All units, Nicholson said over the radio, Use caution.

Guns up, they continued to walk through engineering, until…

"What was that?" one of the Black Ops at the back of the line whispered.

Suddenly, the floor behind them gave way, revealing the most ugliest looking Genome zombie ever.

"SHIT!" Nicholson cried, "FIRE!"

They fired at the zombie, which tore into the nearest Assassin, ripping out his spinal column. He then moved onto a female Assassin, who landed a drop-kick into it's 'face,' sending it falling back. It then got up and eyed the N2 Mine.

"KEEP IT AWAY FROM THE MINE!" Nicholson ordered, M4 going off at the zombie.

The Genome then charged again, taking about a hundred bullets and yet not going down. Nicholson reached for his…machete; which he unsheathed from his back.

"CAPTAIN!" the nearest Black Op cried.

The Black Op captain cried out and charged, sinking the machete into the Genome's 'head.' It squealed, before Nicholson pulled his weapon out and struck again, this time through the 'mouth.' He tore it out, splattering yellow blood all over the place.

"FIRE!" Nicholson cried.

They all fired at the Genome's exposed heart, causing it to explode in it's chest. It then toppled backwards, finally dying.

Nicholson breathed a sigh of relief, before sheathing his bloodied machete.

"Let's move on!" he exclaimed.

With Williams in the lead, they stepped over the bodies of the fallen NERV and JSSDF, their screams and cries still echoing around the tight passages of engineering, enough to drive anyone insane.

They came across a large metallic doorway. Williams was already before it, banging on it slightly. He checked his PDA.

"Captain," Williams said, "Says here that behind this door is the engineering core."

"Can you open it?" Nicholson asked.

Williams smiled uncomfortably, "It may take a while."

"Don't waste time talking to me!" Nicholson exclaimed.

As Williams took out his laptop and plugged into the nearest control panel, Nicholson turned to the others.

"Defensive position," he ordered, "We're staying here."

Williams got to work in overriding the security parameters for the door. About 7 minutes later…

"4th lock is cut!" Williams exclaimed, "Almost there."

One buzz later…

"GOT IT!" Williams cried.

"About time," Rhys muttered.

The door then opened to reveal…a large room full of death. Bodies were piled everywhere, most of them mutilated and begun to decompose. Zombies and headcrabs also littered the area. They then noticed the Black Ops.

"OPEN FIRE!" Nicholson cried.

The Assassins fired, charging into the room and killing the Xenian undead and parasites. Soon, they were all dead, and the Assassins didn't sustain a single casualty.

Nicholson suddenly turned on his best friend…

"Dammit Williams," he cried, "You led us into a breeding area. You were suppose to be leading us to the core of engineering."

"Sorry," Williams replied, feeling stupid, "NERV Japan's schematics are different than the other NERVs."

Rhys looked upon all the bodies. He then did the cross…

'God have mercy on these poor bastards,' he thought.

Suddenly, he saw movement among the bodies. He found a black-haired young woman whose white suit was completely matted in blood.

"Hey!" Rhys cried out, "We got a live one here…"

Williams, Nicholson, and 2 other Assassins walked over to the downed, but still alive, NERV technician.

One of the Assassins loaded his M4.

"Want me to kill her, sir?" he asked Nicholson.

Williams squinted at the woman, before his eye widened like they never have before.

"WAIT!" he cried, turning to the Assassin, "I recognise her."

He then crouched down.

"M…Maya?"

The young woman's eyes also widened.

"J.J.?" Maya replied.

"Maya," Williams replied, tearing off his mask to reveal his face; he then turned around.

"Help her up!"

Rhys and another Assassin got her up on her feet.

'This isn't her blood,' Jay thought, noting what was on the girl's uniform.

"Williams?" Nicholson said.

"Yes, captain?"

"Could you explain yourself?" he asked, "Like why are we disobeying orders to not leave any witnesses?"

Maya's eyes widened upon hearing that, still being held by the Assassins. These people were also here to kill her and her colleagues, especially the person she had ever gotten close to.

'Great,' she thought, 'Everyone is against NERV.'

Williams swallowed, before explaining, "She and I have history and I believe she would be a valuable asset to our operations in the near future."

"Such as…?" Nicholson pressed further.

Williams smiled and said, "She can tell you, if you let her live and escape with us."

Nicholson looked over at the slightly shivering-with-fright Maya, then back at Williams.

"Alright," Nicholson agreed, smiling slightly, "But she's your responsibility."

He nodded at the Assassins holding her arms. They let go and she ran into Williams' arms, crying slightly.

"Hey," Williams whispered, "It's okay. I'm here now."

She looked up into his eyes.

"I thought I'd never see you again," Maya said, almost chokingly.

Williams' face was also glum, "So did I. Stay close to me and we'll get out of here…together."

Maya smiled, "Thank you."

Rhys saw all this and nudged at Nicholson.

"Sir," he whispered, "What's up with Williams and that NERV chick?"

"They dated while in college," Nicholson replied, reminiscing on what Williams told him before the Black Mesa mission, "They got really close."

Rhys smirked, seeing the both of them, "No shit!"

The Black Ops continued to traverse through the underground, Williams and Maya in the lead.

"Are you sure this way leads to the core?" Williams asked.

"I'm positive, J.J.," Maya replied.

They soon came across another door.

'It's always door,' Nicholson thought, annoyed.

"Hold on a minute," Maya said, "I can hack into this."

They then suddenly heard the sounds of alien life bearing down on them from everywhere.

"Make it quick," William replied.

Maya begun pushing buttons and crossing way on the control panel. After half a minute the door opened and they ran through.

It was another large room, filled with computers, machines and monitoring equipment. Only that it wasn't affected by alien life, either by flora or fauna.

"This is the centre of the alien invasion of Tokyo-03?" an Assassin queried, "Looks pretty untouched to me."

"Cool it, soldier," Nicholson ordered, "Set the bomb."

"Bomb!" Maya exclaimed, before turning to Williams, who already had a glum face.

"Yes," he nodded, "We're destroying NERV and Tokyo-03. The aliens have already taken root on Earth through NERV and we're here to clean it up."

Maya couldn't believe this. They were going to blow up NERV and the entire city. She watched as they sit the bomb down. Williams' walked over to it and to it's control panel.

He pressed a few number buttons, before pressing ARM.

"There," he said, "We have half-an-hour to get clear."

"Great job, 'J.J.'," Nicholson said, humorously.

"Can we go now?" Rhys asked.

Nicholson nodded.

Suddenly, several poisonous barbs flew out from the darkness and hit Rhys, sending him flying and nailing him to the wall.

"F#$#!" Williams cried, clutching his M4.

Nicholson looked upon the body of Rhys, dead before he even hit the wall. Suddenly, Race-X came barrelling through the entrance into the core.

Only that it was a horde of Pit Drones. The Assassins raised their rifles and fired, taking cover behind the computers. Williams ducked in and out of cover, before throwing a grenade.

"FIRE IN THE HOLD!"

One explosion later, alien entrails were splattered everywhere.

"Lets go!" Maya exclaimed.

Suddenly…

"HOLY F#$#!" an Assassin cried.

A massive 4-legged bug-like creature with purple stripes, a Voltigore, stormed into the room, followed by Shock Troopers. The Assassin, still taken cover behind the computers, resigned to their fate.

'If I'm going to die,' Maya thought, 'At least I got to be with him again.'

William looked over at Nicholson, who then nodded; his determination to survive was evident on his face.

Nicholson cried out as the Black Ops emerged from their cover and fired.

Bullets tore though the Race-X aliens, who fired back in a barrage of energy. 4 men were instantly down as the Voltigore fired off a purple energy strike, before rushing forward and tearing up another 2. It then rushed for the bomb.

"It's going to disarm it!" Nicholson cried, "WILLIAMS!"

"On it!"

He fired at the creature, before launching a grenade, which hit it point blank in the face. It then toppled over…next to the bomb.

Which the energy within it's body begun to emerge, and hit the bomb.

The pupils in the Black Ops diluted with fear.

"Oh," Nicholson said softly, "Son of a bi…"

BOOOOOOOOOOOOOMMMMMMMMMMMMMMMM!

NERV and Tokyo-03 went up in a ball of fire and energy, vaporising anything and everything in it's radius.


That day when the G-Man welcomed his new recruits into the fold, Tokyo-03 was wiped off the face of the Earth, clearing out the alien invasion…for now.

As for the Black Ops who gave their lives in stopping the forces of Xen…


Nicholson's eyes opened slowly, revealing hew as lying on a cold, steel floor. He looked over to find Williams and Maya, unconscious and in close proximity to each other.

He got up groggily, feeling his head, before tearing off his mask.

"Hey," he said, "Joshua, Maya!"

Their eyes opened as well, which they then got up with a shock. They were practically flying through space in a train car.

"What happened?" Maya cried.

"I think we just got displaced," Williams said, "At the last moment."

Maya turned to him.

"Last moment?" she asked.

"Before the bomb detonated," Williams further explained.

"Where's the rest of the team then?" Nicholson queried.

"I don't know," Williams replied, "They're probably dead as far as I know."

"You don't think that he saved us?" Nicholson asked, surprised he was asking the questions.

"I think he did," Williams replied, smiling, "He must still have use for us."

"And is that why Maya is here?" Nicholson asked again.

"Probably."

Maya was naturally confused.

"What?" she said, turning to Williams, "What's going on, J.J.?"

Williams, still smiling, said, "Everything is going to be fine. I promise."

Maya looked at him, before smiling, taking his word for it.

They looked out the window to find a bright light bearing down on them, before engulfing them entirely…

And taking them, once again, into the unknown.


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