Spoilers: obviously content from the games including the Ending.

For the most part this will follow ME lore, just adding and adapting.

Rated M since i don't want to limit what i can and can't do as the story progresses.

Mother

Kaidan got back up, the strange mercenary had disappeared. No use of searching for the guy now, but something was strange about the guy. Kaidan had seen some pretty weird shit in the last few years from Rachni right up to Cerberus indoctrinating their own people. But this one?
No something was different about this guy. What did the guy say, "Deimos" but was that just his name?

Kaidan turned around and went back towards the podium, it seemed that the fighting was over. Medics where already taking care of injured people. Wrex had even rounded up some of the security guards and threatened to shoot anyone who gave him a reason.
"Garrus status?" He called through the com link since he couldn't find anyone from his crew.

"Cortez and EDI are flying the civilians out to a save place, Liara and Tali escorted the councilors back to the ship. Well except Wrex can't get him away from the battle."

"Yeah, I see him here. What about you and James?"

"Securing the area till we have everyone out."

"Thanks, Garrus we'll meet back aboard, if i can get Wrex to leave those guys in one peace."

"Ha good luck with that one Kaidan, you're going to need it."

Kaidan grinned, Garrus was right. Getting Wrex away from the action is probably harder then getting the strange mercenary to surrender.
Kaidan stopped in his tracks, the strange mercenary! The guy had shot himself, Kaidan ran back to the bar.

Kaidan stood there a moment watching over the bay, he could see the spot. The exact same spot where Shepard had jumped aboard the Normandy when earth was attacked. That was the moment Kaidan had missed his chance, at that exact moment John had become Commander Shepard once again. If he just had visited him once before that day they might have had a shot at being together, but Kaidan had been stubborn, John had that right about him. He had always been to stubborn.

The beeping of his omni tool called him back to the here and now. A new message from his mother no less. Kaidan put it off his mind, he first needed to find something here. After looking a bit closer on the ground he found what he was looking for. Blood from the mercenary. He just needed a sample, maybe he could find out who the guy was.

By the time he had reached Wrex the Salarian spectre was on site with a team.

"Ah, Kaidan Alenko, the council asked me to secure all evidence of what happened here."

"Ehm, good I guess, anything you need?" Shit he didn't need anymore possible security leaks while he investigated this.

"No, we shall secure everything and take the statements of the attendees. The council specifically told me to report everything to you, anything my team should know about?"

"One thing only, there happened absolutely nothing at the bar." Kaidan said hesitating.

"Off course the bar, sadly it got burned when a piece of the rocket fell in to it." The Salarian shook his head and walked of to the bar. Minutes later the place burned.

Kaidan didn't understand this the guy just destroyed the evidence because he said there was nothing there?
"Hey Wrex whats up with that one?" Kaidan nodded towards the Salarian.

"Jondum Bau? Funny guy for a Salarian. Hannah asked him to cover your tracks. The guy knew Shepard from some mission back during the reaper invasion, believe it was something about Hanar Prostitutes or was it Mistresses. He's okay for a Salarian."

After the mess was cleaned up and Kaidan was sure everyone had been taken care of. He sat in the dark on a chair watching to the stars. "John, I'm trying to hold it together, but I don't know how long I can take it anymore." He whispered in the wind.

His omni tool beeped again. Damn he had forgotten about his mom. He read through the messages, she was in Vancouver at the house. Kaidan looked up, she must have seen the whole thing happening.
Kaidan quickly replied. "I'm near the house, can be there in 10." She immediately responded. "Good, I was worried."

Kaidan sent a message to the Normany, warning them that he would stay a bit on earth and he would call if anything came up.
Then he went through some side allies to meet his mom.

The second he knocked at the door she opened, immediately she grabbed him in a tight embrace.

"Kai, you could have told me you where on earth. I was worried sick wen I saw the vids and then the attack..." She almost burst in to tears.

Hmm the nickname again, he hated it whenever she called him Kai. She knew that but it wouldn't stop her from using it anyway.
"Mom, I'm sorry. I was so caught up in things, I should have called."

"You barely even called in to tell me you were alive." Her voice was just a hint accusatory.

"Again sorry mom." Damn he had forgotten to notify her about his whereabouts. Now he really felt guilty.

His mother finally let go of him, dragging him along inside the apartment.
"Boy you're way to thin, isn't the Alliance giving you something decent to eat?"
She immediately went in the kitchen and prepared him some dinner.
"Now tell me everything. You didn't even mention you became a spectre. I had to learn that from the vids."

Kaidan gave her a quick update about everything that had happened. Mars, how Shepard saved him from an android, how Shepard had defeated the Reapers. How he got stuck on an unknown planet after Shepard fired the Crucible. All the time she just sat there bringing him more food and barely saying a word herself. When he had told her everything she sat there looking at him with a questioning expression written over her face.

"Kai honey, be honest. He was more then just your commanding officer wasn't he?"

Kaidan was stunned his mother had looked right through him.
"He could have been mom, just well he probably isn't alive anymore. But how did you guess?"

"Honey I might be old but I'm not stupid, you talk of him as if he was the center of the universe."

"It's to late anyway."

"Kai be honest, you just told be he probably isn't alive anymore, but I have seen the vids today. That was his funeral, you don't believe it was him. Kai, I might just be your old mother, but I'm sure you believe there is a chance that he's alive and if he is... I want you to go out there and find him. Then I want to meet the man who stole my little boy from me." She smiled, a warm loving smile. Her eyes gave him reason to believe again.

"Mom, I want to find him but after all the time that has passed... He would have appeared if he was alive."

"Kai, if there is one thing I learned living with a marine my whole life it's this: don't believe anything until you have proof. You wouldn't believe how often your dad didn't come back on schedule, sometimes a mission went wrong. Sometimes they just had some technical problems and couldn't notify anyone. Don't give up."

Kaidan had to swallow hard, dad he couldn't talk about him. But his mom must have read his expression.

"He's still MIA but with the millions missing... I can keep hoping he shows up."

Kaidan saw the tears raise in his mothers eyes, he held her in a tight embrace. "Mom, I hope you are right."

Somewhere not far away, a person sat in a dark alley hunched in to a corner. Shivering in the cold, bleeding from a wound in the shoulder.

He had to stop the bleeding he knew that, but whenever he pressed a finger in the wound the pain would make his thoughts clearer. He couldn't quit grasp the memories, giant machines, four eyed bugs, death, destruction he just couldn't make sense of it.

Whatever had happened he couldn't quite remember, only flashes of something. But brown eyes had been there he had seen them over and over again. Whenever he thought of the brown warm eyes he felt peaceful. He had to find a way to remember, find out what the whispers had done to him.

He heard the sound of armored boots hitting the pavement in the distance, any moment now they would find him.

Kaidan awoke in the morning from the smell of fresh coffee. The sun shinning through the window.

"Kai you want sirup with your pancakes?" His mom asked standing in the door holding a cup of coffee.

"Mom you don't have to..."

"No, i don't but it's nice to take care of my son for once." She smiled, well Kaidan wasn't going to deny her the pleasure, especially not wen it meant he got some home cooked meal.

Kaidan took place at the table and dug in, he hadn't had anything as good as this in months. Compared to the thing they called coffee on the Normandy, this was actually tasteful and nice, not just burned bitter black water.

Kaidans Omnitool made an annoying beeping sound, reality called him back. "EDI, can't it wait. I have a pile of pancakes that want eating."

"Kaidan, nice to hear your actually eating for a change." Jokers voice sounded amused. "Anyway, it could wait but we have a development here. Nothing that should keep you from eating. But you might want to come back for this one. Where are you anyway?"

"My moms place, I'll be back as soon as I finished my ice cream." Kaidan laughed.

"Now, you're just being mean Kaidan."

"Tell Cortez to pick me up in half an hour. I just want to say goodbye." Kaidan cut the connection. Grabbed another pile of pancakes and enjoyed his coffee.

"Kai, you're not eating enough?"

Kaidan looked at her she was worried.
"Mom, don't worry about it. I just was a few days in the med bay that's all."

"Well I'll pack you a bag with some extras. I'm going back to the Orchard anyway."

"No need, but why go back to the Orchard?"

"Kai, I was just here to pick up the last things before moving over to the Orchard anyway. I leased the place to the alliance."

"Wait what, why didn't you mention that earlier?"

"It's nothing really Kai, The construction teams need a place to stay in the city. So i offered them the apartment. I want to stay at the Orchard anyway. The kids need me there."

"Wait what kids?" What was his mother up to.

"Don't worry, there just are so many orphans now. I took a young Asari in, her parents are MIA, Since I have experience with a Biotic son. Well..."

"Mom you said kids, as in plural."

"Yes there are also some workers and their families, I even have a Krogan in the house, strange fellow, fully grown but only about a year old. He guards the area, I believe he mentioned being a friend of your Commander."

"Grunt?" How did anyone get him to do a simple guard job?

"Yes, Grunt. He is nice, once you get around his rough edges. Don't worry Kai, I don't have to do much around the place. Grunt is mostly scaring of anyone who's trespassing and the workers are just there taking care of the Orchard."

Kaidan felt a lot better knowing Grunt was protecting her. "Okay mom, it's just good to know you're taken care of."

Kaidan packed up and went with his mother to the shuttles. Before he left her he handed her the spare omnitool he had in his pocket. "Just in case there ever is an emergency, it's has contact information to a secure network" He had told her before he returned to the Normandy.

He Paced through his room, if one could even call it a room, there was barely enough space for a bed and a closet.
He didn't know who he was, he tried remembering anything but it was all empty now. There where feelings, instincts but nothing else was left. He knew there where memories from before today. But whenever he tried to hold on to a single one it was gone. Only the two warm brown eyes where there, he didn't know who they belonged to but he saw them over and over again.

There also where whispers silent, soft voices talking to him. He couldn't understand what they said but he knew what they wanted. Before today there was nothing left, they had told him he was Deimos. They told him he had an accident and he lost his memory, it was up to him to bring the traitors down. He had been fighting the traitors for a long time now. But the leader of the traitors was dodgy and it was up to him to defeat them.

He looked in the small mirror in his room, the face starring back at him was not pretty. He couldn't blame the people in the base for looking at him with fear in their eyes. His skin was riddled by red glowing scars, But his eyes where worse they glowed bright red. He had little in common with the humans here on the base, to them h must really look like the monster they spoke of whenever they thought he couldn't hear them. The only one who wasn't repulsed by his appearance was Phobos, but Phobos looked similar. Not so many scars but the same eyes, Phobos had told him they had been like brothers before the betrayal.

He couldn't stop thinking about the traitors, he couldn't remember ever seeing them before. But Phobos had provided him with footage and reports from before he remembered.

Fighting on the Citadel, where the traitors had captured the body of one of their operatives.
Fighting on a ship, the traitors had destroyed the data before he could get to it.
He had even got in a fight with the leader of the traitors when the traitors had sabotaged a funeral.
There was even some older footage, some of the traitor operatives where by Deimos' side before the betrayal, they had worked together bringing down a lunatic.

He didn't understand it all, but it was clear that the traitors must be stopped.