Trust and Traitors

by TheOtherSideOfFluttershy

Experiment: 124ZY Mistake: 1

Twilight followed Princess Luna down the dark tunnel underneath the castle. Twilight herself had never known of this place before. It was the secret lab in which the two princess carried out experiments to help their land. Luna had made sure it was clear that they were truly trying to help, not cause chaos and pretend to help. Luna was always like that now. Making sure her and her sister's names were clean. The tunnel did not have any installed light. Luna's horn gave a small blue light that gave just enough light to guide Luna and Twilight down the hall. There were no guards. The workers down in the tunnels were trained carefully to fight off any attack that may accure. That never has happened, with the lab being never talked about around others. Some of the unicorns' powers matched Celestia's. That didn't mean they could raise the sun. Celestia gave them chances to spread their magic instead of keeping it hidden. Each one had agreed to work in the lab still. Luna had convinced her older sister that, as a new princess, Twilight should be aware of all the secret tunnels. After much begging, and a beautiful magic performance by Twilight, Celestia said yes. The two princesses came upon a door that had light extracting from them.

"This is our latest project, concerning the changelings," Luna explained in a hush voice. The ponies voices echoed loudly if they spoke too loud. Twilight cocked her head a bit, curios.
"Changelings? Are you trying to manipulate their powers? I don't think you would, but you never know." Luna nodded, admiring the young alicorn's observation and hypothesis.
"You are right. Manipulating their powers would cause chaos all over. It is their power we are worried about. After the changeling accident, Celestia called in all the staff and I to discuss the issue. How can we know someone's a changeling, in order prepare for an attack? Their attitude may be spot on next time. We all agreed: the problem was the changelings' power."

"The first step in an experiment! Do your scientist follow the process?" Luna smiled.

"Indeed they do. Maybe one day you may lead them as part as your princess role." Twilight blushed a little. She still couldn't believe that she was made a princess. Luna let her horn die down. It soon light up into triple size. A lock that required magic lit with the same color as Luna's horn. A small click and the door silently cracked open, shedding out more light. Luna guided the door open wide enough to let the two in. Twilight saw five scientist all huddled together, talking quietly. The tallest of them was a sturdy stallion of green body and blue mane. He was a pegasus, the only one in the room of three unicorns and one earth pony. The one who seemed to lead them was the only mare, a unicorn with purple body and pink mane. Her mane was in a messy braid. Bags dropped underneath her eyes. As the scientist scattered to their desks, the mare came over to greet them.
"Goodness, Molly, you look awfully tired!" Luna exclaimed to the mare.

"I know and I am aware. The experiment we are working on has some new complications. I cannot stress enough how hard we have been working to fix these bugs." Molly turned to Twilight. She smiled.
"I am so glad to meet you, Princess Twilight. I have heard much about you and your magic. You would make a great member here, but I understand that this is not the path for you. I do not wish to divert it." Twilight saw that this mare respected others and liked to have happiness. Her voice also revealed that Molly was a natural, well-rounded leader who listened to her teammates.
"I am very glad to know that we have scientist working on the better for us. I am glad to meet you," Twilight replied, using her voice to express that she trusts Molly in whatever will come. Molly nodded. The green stallion walked up to them, glaring at the young princess.
"Molly, not disturb your conversation with the special guest," he growled," I need to talk to you about the experiment. Privately." Luna eyed the stallion, not liking how he excluded them. Before she could tip him off, Molly calmed the seas.
"Birch, these guest understand the experiment as clear as you and me. Luna is very capable of showing Princess Twilight around and translating advance terms for her, though I doubt she'll need to." The stallion looked and them again. He sighed.
"Alright then. But don't say I didn't warn you. The test subjects. Someone" he looked at the earth pony "who I will not name decided it was taking too long with the research. You had said that it is important to complete it or else there may be consequences. I think that we were almost done with the research, so hopefully the damage will be low and contained." Molly looked worried. The situation was dangerous, but she remained calm. Twilight herself felt her heart pound faster.
"Yes, that is a problem. If not enough research and control tests were done, damage is well on its way. Princesses, I am sorry about this. Your help may be needed." Luna looked at Twilight. She started after a rushing Molly, who alerted the others. The earth pony received some dirty looks from the fellow scientist, but no one fought. The time to argue and yell was later when the danger died down.
"Where is the subject at?" Molly breathed to the earth pony before passing.
"Containment room. I followed all safety procedures. The only ones who are to be affected is the pony." Molly noted down something on a clipboard as she nodded. She quickly shuffled down the white tunnel that connected the glowing rooms. All seemed naturally powered by magic. The tunnel was long and only one door lay at the end. That fact made Twilight feel as if they were going to go through a door that led to their doom.
That shouldn't happen, Twilight thought, You heard the earth pony. This is the safety room. And judging from everything else, this room won't be my doom. Molly's purple horn glowed and enlarged by three times its size before breaking open a thick door. Twilight noticed her cutie mark was a captain's hat. Her leadership was her destiny. Right now, her leadership could prevent chaos from breaking out. The three entered in a quiet rush. A control panel and intercom were built in at the front. The green buttons glowed with life. Above the panel was a glass window that filled the entire wall. Immeaditly, Twilight saw that something was differently wrong. The pony inside was a unicorn. She had white skin and orange and red spiky hair similar to a changelings'. Her hair was blowing, and her hooves were surronded by a pink mist. Her eyes glowed a burning red, and her horn was blazing. Her shriek was of pain and anger. Twilight gasped.
"Molly, what's happening to her?" Molly was busy pressing buttons and taking notes.
"Her body is being fused with a changeling. The process is very painful. I had asked to find someway to make it harmless, but the research was never done." Twilight didn't approve completely on the idea of using a real pony and a real changeling. It was too late now to suggest this. Twilight watched as the pony's body generated with one of a changelings. It only happened to part of her body. Her right legs began to become black and holey. The mist followed the climb on the other side. Her tail became a slimy dark pink with holes. Twilight didn't remeber any changelings having pink tails. Her side matched her legs. Her right wing was gray purple, looking like a fly's wing, but with holes. As for her head, her right side of her mouth joined in her screaming with pointed fangs coming out. Her eyes stayed glowing. Her horn joined in the holes and black of her body. When the changeling body and pink mist meet, a huge explosion took place. It rang in Twilight's ears. Twilight opened her eyes. Everypony was talking, but she couldn't hear them yet. She looked to the changeling pony. A black smoke surrounded her. Slowly, her figure made shape. She looked normal. It wasn't until she opened her eyes when Twilight saw the success in the experiment. One eye was a changeling eye.

Author's Note:

I am ready for suggestions if you have any! This may take a while so yeah:)
EDIT: I changed her appearance, so don't say I mixed up on the second one