I like how no one was surprised by Tom. It was all just KOVARIAN! WHAT! hahahahah. Poor Tom.

Enjoy!

Sherlock, John and Lestrade arrived at the warehouse, they stood outside for a moment before deciding on a plan and heading in. Sherlock headed straight for the door, Lestrade went left and John, with slight hesitation, went right. They were the ones with guns, Sherlock was going in unarmed. He bounded through the door, and was in a long hallway. Both ends led nowhere, and there was only a desk and toilets on either side. In front of him was another set of doors, and he went through it.

John and Lestrade met at the back of the building, and both looked to the side at the ladder that led up to the top. They shrugged and climbed up to see that there was a clouded glass skylight and they exchanged a look before heading to it. They looked down to see a woman standing in front of Molly, who was slumped forward in a chair. The Doctor was restrained to a post and Sherlock was holding himself hostage...

"No that's not right, who is that?" John squinted, trying to rub some of the grime away from the glass.

"Is that... No it can't be." Lestrade said, his eyes widening, "Is that Tom?"

01010101010101010101010

Sherlock got through the second door just to be met with a plank of wood to the face. He was knocked back and immediately apprehended by someone wearing a coat very similar to his own. He looked back at the man who had his arm around his throat and scoffed.

"Tom? Really? Are you so easily swayed." Sherlock said, "Are you going to stab me with a meat dagger now?" He joked, though Molly was too out of it to understand and the Doctor and Kovarian didn't understand at all.

"Stoppit, just stop. Do you even realize that after I made a fool of myself at that wedding Molly dumped me? She thought I was an idiot." Tom tightened his hold on the detective.

"Well to be fair..." Sherlock started before he was choked a bit.

"No one can be intelligent or wise next to the great Sherlock Holmes, especially not in her eyes."

"If we're done being utter idiots, I'd like to move on." The woman said, Sherlock furrowed his brow, trying to figure out who she was, and why was she wearing an eyepatch, he decided to ask just that.

"Who are you? Why are you wearing an eyepatch? I don't see a scar anywhere." Sherlock studied her, gathered all the intel he could.

"I'm not from this universe Mr. Holmes." She began and looked at the Doctor, "You see, when the time line aborted, I wasn't deposited in our universe, I was left here. In this world. At first I thought it was a blessing, to be away from any and all alien life forms. I was finally free from the tyranny of the Doctor. But then I started noticing small things here and there. I realized there were Time Lords here, in hiding. I decided it was my duty to free this universe of all the Gallifreyan scum."

"You're the scum." The Doctor growled, "You can't refrain from kidnapping people that I hold dear."

"You hardly know this woman." She laughed.

"Doesn't matter, she's important to Sherlock and John, so she's important to me." He explained, Madame Kovarian feigned sorrow.

"Oh, I'm so sorry Doctor. Here let me untie you, you can go. I had no idea she was important to you." She laughed, Sherlock decided this woman was the female equivalent of crazy to Moriarty. He was beginning to formulate a way to get out of the surprisingly strong grasp of Tom and take her down when the doors burst open and Lestrade and John came in. Sherlock rolled his eyes, better late than never he supposed.

"Hold it right there, eyepatch lady." Lestrade said, John dropped his gun for a moment and gave him a look, "What? We don't know her name, it's the best I could come up with." John shrugged and held his gun back up, aimed at Kovarian.

"Her name is Madame Kovarian, and she's pure evil. She's the reason River had to grow up without her parents. The reason Amy will never be able to have any more children. She ripped apart a family, my family. All because she wanted to break me." The Doctor explained, fuming.

"No Doctor, we wanted to kill you. There's a big difference between breaking and killing." She said casually, as if it were nothing. Lestrade had enough and moved to arrest her, she gave in too easily.

"This is too easy." Sherlock said, as Tom released him, "What's the bigger picture?" He asked, moving to meet her face to face.

"There's no bigger picture, you've caught me, plain and simple." She smirked as the cuffs were being locked around her wrists. John quickly untied the Doctor and he stood, his face noticeably angry.

"What is your angle, Kovarian?" He moved with her as she tried to avert her gaze, he ended up grabbing her head to keep her still, "No, stop it, what do you want?"

"You already know what I want." She laughed, "You just have to accept it."

"You can't kill me if you're in jail."

"And you can't prove that I killed anyone, so how are you going to lock me away?" She challenged, he turned and pointed at Sherlock.

"He can prove anything. He's Sherlock Holmes. And you shouldn't test me, you really shouldn't, you know what happens when you get on my bad side." The Doctor said, John was taken aback for a moment, and saw how he could have killed all of his own people.

"I'd like to see that bad side, Doctor." She laughed wickedly and Lestrade tugged on her handcuffs, causing her to stop and wince.

"Just what are you trying to do?" The Doctor asked, getting fed up with her act.

"I want you to suffer." She said, "I want you to find hope, and have it crushed. I want you to realize that you truly are alone in not only your own world, but this one as well." The confession caused the Doctor to look down and frown slightly, it caused John's fists to clench, Lestrade's blood to boil, and it helped Sherlock to understand the Doctor a little better. The detective walked over to the Doctor and placed a hand on his shoulder.

"He's not alone." He said, smirking down at the Time Lord, "Not as long as he has us."

"Oh isn't that sweet." She rolled her eyes, well, eye, "But you're not his people, he is alone. I've killed all the Time Lords seeking refuge here."

"That you know of." The Doctor said quietly, harshly.

"That I could track down, yes. But as far as I know, that's all of them. I opened the watch of the first one I killed, let his Time Lord consciousness fill his head back up. He gave me the names of all the others, where I could find them. And I did, oh I did." Madame Kovarian watched as the Doctor fumed, and laughed when Sherlock held him back as he lunged at her, "Please, do keep getting more angry."

"Stop, Doctor. This is what she wants." Sherlock said to him quietly.

"And you know what she wants?" He asked, turning to look at the detective who had his arm blocking his path.

"I've dealt with my own psychopath, or have you forgotten already?"

"It's been a long time since Moriarty for me, Sherlock." The Doctor straightened his jacket and bow tie, "A thousand or so odd years. So yes, I'd forgotten some details of our last encounter."

"And yet you're still wearing the same outfit." Sherlock said wryly, forcing a small smile from the other man.

"For god's sake, can we just get her down to the yard?" John asked, "And get Molly to A&E?"

"Does she need it?" Tom asked, worried, they all turned to him, having forgotten he was in the room, "Oh god, Molly. I'm so sorry." He began to cry, they all rolled their eyes simultaneously.

"I suppose you're going to arrest him too? For conspiring?" John asked Lestrade.

"Yeah. I guess." Lestrade sounded bored. They all moved at once, Greg dragged off the smirking woman, John grabbed the crying Tom, Sherlock picked up the dazed Molly. The Doctor stood for a moment, trying to figure out what game Madame Kovarian was playing. He glanced all around him, worried he was going to see the silence. He figured Kovarian wouldn't still be wearing her eyepatch if they weren't around, but was relieved when he found no signs that he had tried to warn himself of their presence. He was about to leave when he caught sight of something shining on the ground. He knelt down to pick it up to discover it was a key, it had a red tag attached to it, like it was from a hotel of some sort.

"Winter Quay?" He shrugged and put it into his pocket, assuming it was unimportant, and headed out the door after them.

I don't even know what my brain is doing anymore. WHAT?