New chapter!

Answers to reviews:

Sparta47: I haven´t watched the X-Men but I have read a lot of fanfictions with them but they have so many characters and they do not exist in the same fictional universe. Marvel studios owns The avengers etc. and 20th Century Fox owns the X-Men and mutants. The X-Men and Avengers co-exist in the comics but not in the movies. Also they will investigate how they got to the MCU but they will not find any explanations.

PocketDuelMonsters: There may be some John x Natasha but the spartans in this story are very strict and tend to stick to the military style and they will not have a civilian identity unless they are on missions. Also John and Natasha will not have a relationship but Natasha will be intrested in John later in the story. Also only Blue Team and some others will be "awake" and the rest will be in cryosleep in the Reach.

Disclaimer: I do NOT own the Avengers, AoS or Halo, they belong to Marvel and 343 Industries.

[?/?/2013 MCU Time]

4 years. For 4 years they had been in this strange alternate version of their universe. Much had happened in the world these 4 years, Tony Stark had been kidnapped and became Iron Man, a norse god had come to Earth, a giant green rage moster had wrecked Harlem in New York and there had been an alien invasion that also had occurred in New York.

A/N: Strange. Everything is happening in New York. Well, it is called "The city that never sleeps"

But the world were not the only ones who had been busy, the spartans had also done some stuff. They had researched this strange world and it´s "super heroes" and had made some decisions. Only Blue team was to be out of cryosleep for prolonged periods of time while the rest were in cryo and they were only awakened once a year to be informed if the events of the year so they
didn´t get confused if they were woken up after several years in cryosleep. The spartans were also confused when they still looked max 20 years old and didn´t age even after being in this world for several years. They hadn´t made a base on the planet and stuck with the UNSC Reach as their base of operations.

Also the Blue team and Cortana had monitored all events in these 4 years and had hacked into every major government agency to find out some information. Meanwhile Dr Halsey had taken a job as a scientist in SHIELD and Chief Mendez was a drill instructor also in SHIELD. While they were there they noticed how they talked about someone hacking into SHIELD and breaking their RSA implementation. They had informed Cortana about this hacker and ordered her to find out who it was because he/she could be an asset or a problem.

That was 1 year ago. They had recruited the hacker, Skye, and made her an undercover agent for them after she received spartan-grade training but, she is of course nowhere near as good as a spartan with their augmentations and experience along with their 8 year long basic training when they were children. Now was the time for her to begin her first assignment.

She was to in some way gain the attention of SHIELD and infiltrate them.

Skye had thought of everything. She had erased all her files and had joined the Rising Tide as part of her cover and had released some of SHIELDs files but she made sure they weren´t the most top secret but it was certain to gain their attention. She had special way to contact Cortana in case of emergency, all you had to do was to type in "CTN 0452-9" in any search engine on any computer or phone and it would open a direct audiolink to Cortana who was disguised as a member of The Department of Homeland Security.

So now the only thing left was to get "captured."

[Timeskip to airplane interrogation]

"You guys are making a big mistake" said Skye.

"You don´t look that big" answered Agent Ward with a straight face.
'If only he knew' thought Skye.

"Sorry for the lack of finesse," said agent Coulson, "Agent Ward has had a little history with your group, the Rising Tide."

"I don´t know wha…."tried Skye but was interrupted by Agent Ward.

"Okay there are two ways we can do this"

"Ohh, is one of them the easy way?" asked Skye sarcastically with a grin on her face.

"No" answered Agent Ward with an emotionless voice.

"Oh" said Skye quietly, her grin disappearing and feigning embarrassment.

The days came and went for Skye, gaining trust from the SHIELD team. The first mission was a bust, she knew Camilla was hiding something the moment she saw her, but of course she couldn´t say that to the team since they wouldn´t belive her or it would raise suspicions. She was forced to save the team by opening a lifeboat inside the "Bus".

Agent Ward had also taken up the task of "training" her but since she already knew the moves he was teaching her it was only a waste of time. She contacted Cortana after a mission if necessary and she had to do some inappropriate actions to make her cover be more real, she couldn´t just be their worst enemy and then be their best friend in a second. While her cover said that she joined the Rising Tide was so she could find out who her parents were and SHIELD had the only clue about them, that´s why she accepted the offer from Coulson, but in reality Cortana had already found out who her partents were and who they are, she hacked in to the redacted document with ease and found out.
She told Coulson that the document was the reason but the real reason was so he would think she wasn´t hiding anything more and so they could trust her again.

She also had Blue team as backup on every mission and they would be there in a moments notice if needed.

[Timeskip to Fall of SHIELD, ?/?/2014 MCU Time]

While Cortana had found out about some corrupt files in SHIELD, she didn´t think it would be this deep inside. She had informed Skye of potential undercover agents in SHIELD but was a little bit surprised when Hydra had unveiled themselves and had managed to get more than half of SHIELD infiltrated.

Dr Halsey and Chief Mendez were on their way to the Hub while SHIELD fell and Cortana could easily take over control of their respective Quinjets and have two spartans each waiting to free them when they landed at an random location. Nobody would investigate why 2 insignificant Quinjets disappeared when the worlds largest government agency fell.

Cortana also knew that Director Fury had secret bunkers somwhere on the planet but didn´t know where because they were 'secret'. So when Coulson and Skye´s team had established themselves in the Playground after Grant Ward was revealed to be a Hydra agent she was quite impressed how Fury had managed to hide these bunkers for so long, since some were hidden in plain sight.

A/N End of chapter. This chapter and a bit of the next will be mostly timeskip but after that, after AoU, Skye will be introduced to the Avengers. That´s when the "real" story will begin, with real dialogues and fightscenes.