Got this idea from reading some other Fanfics, decided to try it out :D

I will warn you now though, there are a lot of time skips…some small and some really big so bear with me. The timeline is a little off with the movies and such so don't sue me.

Enjoy!

Tony stared blankly out the window. It was raining and the city was filled with colorful umbrellas and honking cars, but Tony saw none of this. He was too busy thinking about the past three weeks.

It's been a month since the Invasion of New York. After the invasion and the tower was fixed he invited the other Avengers to stay with him. They all took his offer and moved into the custom floors that Tony had provided them.

"Jarvis, call Dr. Yang. Tell her that I'm coming in for a check-up." Tony instructed.

"Of course Sir. Shall I inform Miss Potts?" Jarvis asked.

"No, no one needs to know." Tony rode the elevator down to the garage. He drove to a small hospital where Dr. Yang was located. She had been his personal physician ever since Afghanistan. She was the only person he trusted with information about the arc reactor. He even gave her a building with every kind of medical equipment out there. There was a small amount of staff that worked with her, but they were mostly assistants.

"Good morning Mr. Stark. What can I do for you today?" Dr. Yang asked. She was an older woman, with graying black hair tied up into a neat bun. She was petit but strong enough to hold Tony down when he was being difficult.

"I've been feeling a bit nauseous for the past few weeks. Dizzy too. And exhausted." Tony said.

"Have you been drinking excessively again?" Dr. Yang asked.

Tony shook his head, "I thought it was that at first so I cut drinking, but it hasn't stopped."

"Let's take a blood sample. Perhaps that will answer our question." Dr. Yang took a few vials of blood and left the room.

Tony got out his tablet and started playing with it. "Jarvis, what do you think is wrong with me?"

"I don't know Sir. Maybe the stomach flu?" The AI suggested.

Tony hummed.

0o0o0o0o0o0o0

An hour later, Dr. Yang returned to the room.

"So what's wrong with me Doc?" Tony asked.

"Well, you're HCG levels are very high."

"What does that mean?"

"It means that you either have cancer or that you're pregnant."

Tony looked horrified, "I don't know which one's worse."

Dr. Yang huffed a laugh, "I can think of worse things than being pregnant Mr. Stark."

"You think I'm pregnant?"

"I wouldn't put it past you, but no, I don't. It's physically impossible."

Tony thought for a minute. "I think we should check."

Dr. Yang raised a curious eye brow, "You want to do an ultrasound?"

Tony nodded, "Just in case. I don't want to leave any option open."

Dr. Yang sighed, "Alright, follow me." They went to the back of the hospital where all of the large machines were. Tony changed into a hospital gown and laid down on the bed. She applied the gel to his stomach followed by the wand, looking at the machine. "Oh my" She gasped.

"What?" Tony tensed.

"You're pregnant." She replied.

"What?!"

She turned the screen for Tony to see. Her finger pointed to a small bead in the middle of the screen. "That is your baby."

"My baby?" Tony gasped.

Dr. Yang nodded. "It shouldn't be possible, but there is the proof." She chuckled, "I shouldn't be this surprised."

"Yeah, you really shouldn't. After all I've been through?" Tony smirked.

She wiped off the gel and handed him his clothes. "Are you going to tell anyone about this?"

Tony shook his head, "No, I can't trust anyone with this. If they find out who the father is, they'd probably arrest me."

Dr. Yang looked shocked, "Who is the father?"

Tony looked hesitant.

"Mr. Stark, you have my word that nothing you tell me or show me will ever leave this room. Doctor-Patient confidentiality is something I take very seriously."

Tony smiled, "It's Loki" He whispered.

"Loki? The person who invaded a month ago?" Dr. Yang asked incredulously.

Tony nodded. "We met way before then though"

Flashback

Tony was bored out of his mind. Pepper had dragged him out to a charity event that evening. Ever since the "I am Iron Man" fiasco, she has been dragging him to every kind of party out there.

"You need to be there Tony." Pepper said. "You need to build up your reputation again; show everyone that you haven't changed because you're some kind of hero now."

Tony rolled his eyes as he finished his drink. He spent the past three hours schmoozing and now he just wanted to go home. He hadn't even found a woman to occupy his time, none of them peaked his fancy.

"You seem bored Mr. Stark"

Tony looked up to find a gorgeous man standing next to him at the bar.

"I'm not anymore" Tony smiled charmingly.

The stranger smirked, "Oh I'm sure."

"Tony Stark, but I think you already knew that." Tony held out his hand.

"Loki Odinson. And yes, I did." Instead of shaking Tony's hand; Loki turned it and brought it to his mouth, placing a gentle kiss to Tony's knuckles. "Perhaps I could help you with your boredom?" He raised a brow suggestively.

Tony smirked, "What did you have in mind?"

"Quite a few things actually." Loki pulled Tony closer so that their chests were touching.

"How intriguing, lead the way then Mr. Odinson."

End of Flashback

"After that we slept together for a while before he had to leave. About a year later, he came back."

Flashback

Tony was working in his workshop in Malibu. He was working on some designs for the arc reactor so that he could build a new headquarters in New York. Pepper was on a business trip, he was glad he gave her the position as CEO of the company, she was doing a way better job than he ever did.

"Sir, there appears to be an intruder in the living room." Jarvis informed.

Tony looked up curiously. "On standby J" He walked up the stairs to the living room and looked around.

"It's a beautiful home you have here Anthony."

Tony turned to the window to see Loki gazing out at the sea.

"Loki?" Tony asked.

Loki turned and smiled at the genius. "Hello Anthony. It's been a while hasn't it?"

Tony smiled, "Only a year. How's home?"

"As well as it can be." Loki sighed.

"Sounds bad"

"My brother will be king soon." Loki muttered.

"What? King?"

Loki looked away, "I guess I should tell you something about myself." He looked back at Tony. "I am not human. I am Loki of Asgard, God of Mischief and Lies."

"You're kidding right?"

Loki shook his head, "It's hard to believe I'm sure, but I do not jest."

Tony gave a low whistle, "So I've been sleeping with a god. Not bad."

Loki smirked and grabbed Tony around the waist, bringing him closer. "I don't usually bed mortals, but something about you intrigues me."

"Well, I've always thought of myself as speial." Tony replied.

"Indeed"

End of Flashback

"So you just accepted his explanation?" Dr. Yang asked.

"Yeah, I had my suspicions anyway since Jarvis couldn't find anything on a Loki Odinson except for Norse Mythology. It was either that or he gave me the wrong name. But I also ran his face and I still couldn't find anything. It made sense."

"Right" Dr. Yang rolled her eyes. "How long was he with you that time?"

"About a month and a half. We talked more about each other, I found out about his hard life and I told him about mine. Soon enough, we were in love."

Flashback

They had just finished another round of sex, they were cuddled together with Tony resting in Loki's arms. "I love you" Loki whispered as he ran his fingers through Tony's hair.

Tony stiffened.

"Anthony?" Loki asked.

Tony pushed himself up and looked at Loki, "Do you mean that?"

"I do. You do not have to say it in return. Just as long as you know and will still have me, I will accept it."

Tony smiled and kissed Loki slowly, "Well, it's a good thing that I love you too."

Loki smiled and kissed Tony again, this time with more passion, which led to another round of sex.

End of Flashback

"Do you ever take things slowly Mr. Stark?" Dr. Yang asked in exasperation.

"Why go slow when fast is so much better?" Tony smirked. "More fun too."

Dr. Yang rolled her eyes again. "So after you two confessed to each other, he had to leave."

Tony nodded, "His brother's coronation was coming up and he had to be there. He promised he would come back, but he never did. Not until he invaded."

Dr. Yang looked at Tony sadly, "You moved on."

"Sort of. Sure I loved Pepper, but I never stopped loving Loki. I thought he wouldn't ever come back and Pepper was there. She gave me the love I needed, but I could never stop thinking about Loki. When I saw the footage of him at SHIELD I wanted to lock myself up and cry. I felt as if I betrayed him. I told him about Pepper when he snuck into my room after we caught him after the invasion. He forgave me and was happy that I wasn't alone during that time."

"I'm guessing you slept with each other, resulting in this pregnancy."

"Yeah, I think I'm pregnant because he was in his true form instead of his Asgardian form that time."

Dr. Yang nodded.

"He told me about his true heritage as a Frost Giant and the pain he went through after he returned home. He was tortured and forced to invade Earth, he never wanted to do it. He just wanted to come back to me. I can't believe I just gave up on him when he never gave up on me." Tony's eyes started to get misty.

"You shouldn't feel any guilt Mr. Stark. You and Miss Potts are no longer together, everything is fine. If you were still together, I would be telling you something different."

Tony shrugged, "Pep couldn't handle me. Thought I got into too much trouble and she couldn't handle loving someone who didn't care about their well-being."

Dr. Yang nodded, "It takes a special person to deal with you Mr. Stark. But it seems you have found him."

"Only to have him taken away from me again." Tony pouted.

Dr. Yang smiled gently, "You'll see him again. Believe that you will see him again."

Tony smiled, "I can do that."

Review please! Reviews are the best :D