Disclaimer: DO NOT OWN!

Stargate: An Alternate Tale

Disclaimer: I DO NOT own Stargate, Stargate Atlantis, Xena, and Star Trek: Voyager or any of the other TV shows mentioned here. The characters are not mine and the original story lines are not mine. I make NO money off this story it is purely written for fun.

A/N and Warnings: I have changed cannon to fit my story the way that I want it. It is an AU fic so no complaints that something isn't right. It is a FEMSLASH Fic so if that is not your cup of tea LEAVE NOW. This story is rated Mature for a reason, there will be sense of a sexual and loving nature between two women. This is the only warning I am going to give, so again if this is not what you enjoy you are welcome to leave.

This is mainly a Sam/Janet femslash. However, there will be references and scenes between Elizabeth/Teyla, and Xena and Gabrielle (You could call them uber, but I am not changing their names.) I am also looking at a Cassandra/F pairing and I'm leaning towards Jennifer Keller for that, but it will be MUCH later in the series. There will also be a short story crossover with VOY that will feature J/7 parings and B/F.

On a final note, I enjoy reviews and feedback just like any other writer. My work is only reviewed by me, because I update so infrequently. If you see any mistakes or errors please let me know so that I can change them. HOWEVER, I do not enjoy flames. So if you hate my work that much, please just stop reading it and go away.

Now on to the story J

Chapter One

Dr. Janet Fraiser, Major in the US Air Force, CMO of the most dangerous and top secret base on the planet, was beside herself with worry. The usually cool and collected doctor, who could handle anything, couldn't seem to handle the idea of not knowing, of waiting. She was pacing the briefing room waiting for word on SG1 and the wait was killing her. She had been in the General's office when SG1 had called in requesting back up. Her heart had stopped in her chest and she had nearly collapsed. Closing her eyes all she could see what Sam Carter's beautiful face. Her amazing baby blues and unruly blond hair.

Janet cared about all her people, especially SG1. The boys were all great uncles for Cassie and they were all great friends. She worried about them every time they stepped through the gate, but the one she worried for the most, the one she cared for the most was Samantha, her best friend, the woman she loved, the woman who until last night she had been sure what straight.

Pacing back and forth Janet didn't notice the General watching her, as she once again cursed herself for being such a coward. She had loved Sam since the moment she laid eyes on her, the moment they first met. She had never thought herself gay until that moment, but she found that she didn't care, when she was with Sam her world was right, she was whole, her heart and soul were complete. They had spent the past several years as friends, especially raising Cassie together. Since she was convinced that Sam was straight she had never spoken of her feelings.

Sighing she ran her fingers through her hair. Once again remembering the night before. Sam had come over, like always, to see Cassie before she went on her next mission, but Cassie wasn't home yet. So the two friends had spent the time talking and getting dinner ready. Sam was leaning against the counter watching Janet work. She looked up to smile at the taller woman, but stopped short at the look she was getting. She nearly came under the intensity of it. Sam's blue eyes had darkened with unmistakable desire, passion and love. The two were lost in the other's gaze and for that moment in time their true feelings were laid bare to see.

Janet opened her mouth, about to speak, to ask how Sam felt or admit her love, but before she could Cassie was there. Sam gave her one more look of longing before turning to greet the girl. There had been no other chance to speak before Sam had to leave and then this morning they were on base. Now she was wishing she had found a way. The thought of having missed the opportunity and never getting another was tearing up inside.

She was so caught up in her thought that she nearly jumped out of her skin when General Hammond spoke to her, "Doctor Fraiser, may I see you for a moment?"

"Yes, Sir!" came her automatic reply.

She followed him into the office, surprised when he shut the door and blinds. "Have a seat Janet." She caught the use of her first name. The signal that this conversation was private, personal, and off the record. She wasn't sure how she felt about that as she sank into her seat.

There was a long silence until Hammond spoke, "I need you to understand that this conversation is not between CO and CMO. I am not your commanding officer or the General. I am simple George. The man who sees you like a daughter and Cassie as a granddaughter. Friend to Jack, Daniel, and Teal'c; godfather to Sam." He waited until Janet nodded then asked. "Do you trust me Janet? Do you trust me when I say I want nothing more than to see you all safe and happy?"

There was no hesitation in Janet's reply, "Without a doubt, sir!"

Hammond smiled, "That's good, because I'm about to ask you a question I know might not be completely comfortable for either of us, but please believe me when I say your answer will remain between us." Again the small doctor just nodded, so Hammond continued, "What are your feelings for Sam, Janet?"

Moment of truth, Janet Thought. She could either continue to deny it or finally admit to someone how she felt. Taking a deep breath she made her decision, "I love her, George. I have since the moment I first met her. I love her so much it hurts at times and it's becoming harder and harder to not tell her."

Hammond smiled softly at her, sensing her nervousness at her admission. "I'm glad, Janet, because it makes what I have to say easier." Taking a deep breath he continued, "I've known about Sam's sexual orientation since she was 18. She told me first so that I could help with her father. It didn't work. Jacob was furious that he daughter was gay. He wouldn't talk to her for years, until she became engaged to Henson. It didn't matter that he was an abusive, rapping SOB. Just that his daughter was normal."

He took another deep breath before continuing, "I tried to talk her out of it. Told her to be true to who she was, but it took a while for her to listen and once she did she swore she would never date again. I always knew that one day she would find the right person, and she has. She found you Janet." She looked at him in Shock. "She might kill me for telling you this, but I think that you need to know. I spoke to her last night and she all be admitted she loved you. She is willing to face her dad's wrath and discharge for the Air force in order to be with you. Now what I need to know is are you? Are you willing to give up your career to be with Sam?"

Janet nodded, "I would risk everything, but Cassie to be with her."

Hammond smiled again, "Sam said the same thing. I'll tell you what I told her. Short of you being arrested I have a Presidential Order stating that they cannot take Cassandra from you."

"Once we open that door…" Hammond continued, "Don't ask, Don't tell goes back into affect. As long as you don't blow your cover no one on the base need know about you. I would advise telling Daniel and Teal'c. They will support you. Though Jack might be a problem, since he is in love with Sam. There is no official rule saying you and Sam can't live together, just be discreet about it.

"What about Jacob?" Janet asked "And Cassie"

"Jacob will be mad, but he won't cause any legal trouble, I promise." Hammond held up a hand. "As for Cassie. She approached me almost 3 months ago because she couldn't understand why her two mothers' weren't together, when it was obvious that you two loved each other."

Before anything else could be said the alarms sounded and Walker came over the intercom. General Hammond, to the control room. Medical team to the Gate Room. We have incoming injured."

Janet's stomach knotted again in fear. As she ran towards the gate room she knew that Sam was one of the injured. She could feel in her heart and Soul and she was terrified. She arrived just in time to meet her team entering the room and the away team returning. Two nurses rushed forward to help and injured Daniel, but he just waved them off and told them to see to Sam. He turned to Janet with sorrow in his eyes, "I'm not sure how bad it is. She was shot in the leg saving Jack. He tired to catch her as she went down, but he couldn't get to her in time. She hit her head hard. She's been unconscious ever since."

All she could do was nod as Jack and Teal'c carried Sam down the ramp and placed her on the gurney. Taking a deep breath Janet pushed her fear aside and set to work on helping Sam.

Two hours later she walked out of the infirmary to meet a waiting SG1 and Hammond. "She's fine." Janet said without preamble. "The leg wound wasn't too bad. She'll be laid up for at least two weeks and on light duty another two, but that's it. The head wound was a little more severe, but not life threatening. I'll run some more tests when she wakes, but I'm positive that she will be fine."

"General", she added, "She can leave as soon as she's cleared, probably tomorrow afternoon, but she'll need someone to watch her the first few days." She gave him a pleading look.

Jack started to speak, Janet knew he wouldn't miss this chance to 'help' his 2IC, but the General cut him off. "The rest of SG1 leaves tomorrow on a mission, but I just approved your request for 2 weeks of leave. Would you mind helping the Major?"

Janet smiled, "of course not. Cassie and I'll be glad too. Daniel would you mind going to get some of Sam's things and taking them to my place."

He just nodded, bewildered. She smile at him and then turned to Jack, "Colonel would mind picking Cassie up from school and bringing her here. She'll want to see Sam."

She knew he would be upset, but he would never say no. He always made a point to be the first one Sam saw when she woke, and it always irked Janet to no end. She knew Sam only held brotherly love for Jack, but she would admit that his obsession with Sam bothered her. She had been jealous at first, but now it just worried her. Pushing her thoughts aside she said, "I'll call and tell her your coming."

Jack opened his mouth but before he could say anything Teal'c jumped in. "I will accompany you O'Neil. Shall we go?" Jack just allowed himself to be pulled away.

Daniel chuckled and said, "Janet can I borrow your set of keys to Sam's. I left mine at the apartment." He followed her to her office and shut the door. As soon as he turned around he had his arms full of a sobbing Janet. He just held her close as she finally released all her frustration and fear.

It was several long minutes before she gained enough control to pull back. Wiping her eyes she said, "I'm sorry Daniel."

Daniel just shook his head and smiled gently. Keeping his voice down he said softly, "You have every right to be upset, Janet. You were scared for the woman you love. There is no shame in that." Laughing gently when she shot him a surprised look he said, "You need to tell her Janet. You need to let her know who much you care. Teal'c and I will keep your secret, even from Jack, but please tell her. Give it a chance."

"As soon as we are safely away from prying eyes and ears I will tell her." Janet promised. "I need to call Cassie before Jack gets there. He sucks at telling her these kinds of things."

Daniel just nodded, "I'll see you later." Picking up the keys he left.

Janet took a few deep breaths before sitting down and picking up the phone. They had given Cassie a cell phone with the express instructions that it was to never be turned off and she was to answer it no matter where she was if the call came from the SGC or one of her family members. So she wasn't surprised when she answered in on the second ring or with a worried tone, "Fraiser"

Janet bit back a chuckle. Cassie was spending too much time with all these military people."Cassie…" She started to say but what but off by her daughter.

"MOM!" Cassie gasped. "Is everything alright? Who's hurt? Is it Sam?"

"Cassandra!" Janet interrupted her. "I need you to calm down and listen to me for a moment, alright?"

"Yes, Ma'am!" Cassie replied

"Everyone will be fine. Jack and Teal'c are coming to get you and bring you hear." Taking a deep breath she continued. "Sweetheart, Sam was injured on their mission today." When she head Cassie gasp she hurried to continue. "She's going to be fine sweetheart. She's just a little banged up at the moment. I need to go see if she's awake, but I'll see you soon. We love you alright."

"I love you and Sam too." She paused then added, "Mom, Tell her…" with that she hung up.

Janet stared at the phone for a while before just shaking her head and hanging up. Leaving her office and going to see Sam, she could help but wonder who else knew that she loved the tall scientist.