SORRY ABOUT THE MISTAKE. I forgot a part to the chapter so I put this up as a new chapter. Look back to the chapter before this to read what happened to Thomaas and Awstin.

Okay, haven't heard from my editor in awhile so I'm uploading! Final chapter! I will see how much time I get. I hope you like this. Sorry if its a bit off since my editor couldn't fix it. It's all good though...maybe I should have taken a second look at it, but I will work harder on the rest of my stories later.

Silence and the end: part 2

"Ugh! I'm tired of all this attention!" Astrid said shoving off an other pair of ponies that wanted to take a good look at them. "It's like they haven't seen crystal ponies in years!"

Something finally clicked in Alyxes head. He walked away from Astrid for a second and asked a pony with a rose for a cutie mark something. "Roseluck, but you can call me Rose" she said unable to take her eyes off of him. "Are you a crystal pony?"

"Yes, yes I am. I was wondering about that. Why do ponies seem so impressed with us?"

"Isn't it obvious? You guys have been gone for a thousand years. After everything that's been going on lately, like the Villains United, we were so happy that you guys could shine happiness on Equestria again."

"He is kind of hot. I wounder if that mare is his girlfriend. Imagine me helping save Equestria then being the first to do it with a crystal pony in over a thousand years."

Alyx walked away and went back with Astrid, "You'll never belive..."

"I heard what she said. You couldn't have asked some ugly stallion instead of a whore?"

Alyx smiled, "Oh, are you mad at me?"

"What!? Of a whore? Of course not!" she said turning around.

"Of course I am you idiot! Did you see how cute she was?"

"You're a lot cuter than her, plus she wouldn't be able to handle me like you do."

"You know I hate it when you read my thoughts!" she said walking off.

"I know you like how my plot sways. This will definitely distract you. Are you looking?"

"You know I hate it when you listen to my conversations, and yes I am." she said smiling at her and staring at her plot.

"Perv." she said simply, but she was actually smiling even though Alyx couldn't see her face.

"I love you!"

"I know you do. Lets find Jake. Once everything is over with him we can make up for a thousand years of being gone."

The train had arrived and Jack made sure that Astrid would know where they were. He said "Well now that Thomaas and Awstin have been taken care of it's time to get rid of Alyx and Astrid."

Astrid turned around quickly, "They are at the train! Quickly, lets go get him!"

Alyx turned around and followed her.

Jack was waiting for them as the others got on another train that had just arrived to go back to their TARDIS. They might have a chance if Derpy, Spitfire and Soarin' split up and took Astrid if Jack and the Doctor worked together to trap Alyx. Jack saw them heading towards where he was. He made his way in the train once it was time to board.

It started moving slightly, but Alyx and Astrid got in it quickly. They saw Jack make his way quickly to another section of the train and followed him. once they got to the center train carrier Astrid tripped on something and fell to the floor. Alyx didn't notice her as he was hot on Jacks track.

She turned round and realize that it was two pegasus ponies that had tripped her. They had started running in the opposite direction as Jack and she followed knowing that they must be helping him in some way.

"Is she following us?" Derpy asked to scared to look back at the possibility of her tripping. It was hard enouhg for her as it was.

Spitfire turned and saw her half a cart away from them, "Oh yes she is! Don't look back and keep running!"

Most ponies had no idea of what to think when the captain of the Wonderbolts was running along side a grey pegasus and running away from a white earth pony in the middle of a train.

"Quickly! We are almost there!" Spitfire said as she made her way though the last door which means that they were now outside the train.

Derpy flew up quickly and Spitfire flew right behind her. She felt a sharp pain on her back hoof after she had started flying. She looked back and noticed that Astrid was grabbing on to her with her teeth. She felt a pain serge though her body but continued flying. "DERPY! HELP!" she said with tears through eyes as she tried to shake her off.

Derpy flew and rammed right into Astrid which hurt Derpy more than anything but Astrid still went down. She fell on top of on of the train carts and lifted her head. "You can't beat me even if you have wings! Jake won't even be able to defeat me with Alyx by my side!"

"His name is Jack now! And Alyx isn't by your side!" Derpy said helping Spitfire; they were still in the air.

Astrids eyes opened wide as she realized what their plans were now. She quickly turned around and went into the first part between two carts to get inside the train. She ran as fast as she could towards the front of the train

A few minutes ago

Alyx was running and gaining on Jack until he ran into one of the last carts that was apparently a storage cart, but the lights were all off. The door suddenly closed behind him. Alyx started laughing, ""Do you really think you can out think me when I can figure out exactly what you're thinking?" He said looking carefully around the room. "Really good plan though, but the darkness is not your ally. You never fully adopted the darkness when you turned into a vampire, while I... was consumed by it!" Alyx was looking around to see if he could hear Jack's thoughts, but he must have been hiding behind something. "All of us accepted this," he continued, "but you didn't. Members of Sombra's League." He heard something in front of him that was like ten thoughts at once. He quickly put his hoof up and hit him right in the throat and pushed him down so he could choke him.

Jack was on the floor trying to get Alyx's hoof off of his throat while Alyx just pushed harder. Jack was trying to say something but he couldn't speak, "MMMHHHH!"

'You're a monster that kills for pleasure!'

Alyx was confused as to why this were the last thoughts that went through his head. "That's a weird thing to say at this moment," Alyx said smiling.

"MH MMHHH HM!"

'Maybe this is just a distraction you idiot!'

Alyx smile instantly dropped. He heard a sonic noise from behind and turned quickly to stop the Doctor, but it was too late. He suddenly heard a sonic noise at an extremely high pitched level. The lights then came on.

"AHHHHHHH!" he yelled letting go of Jack and dropping to the floor while putting his hooves up to his ears, but it did nothing.

Jack looked at the Doctor, "STOP IT!"

The Doctor looked at him wide eyed and showed him his sonic screwdriver, "I did! I stopped right when he let go!"

Soarin came out once he realized that he would be safe from Alyx, "Whats going on?"

Jack looked at him worriedly. Whatever the screwdriver did it must have had a different effect on Alyx since he was a vampire. "What does it do to make ponies hear that noise?"

"It clicks two parts of the ear together, but they wear out too quickly. It's supposed to last three to five seconds tops."

"He's a vampire! Nothing wears out!"

"JUST KILL ME!" Alyx said thinking of any way to make the noise stop.

Jack looked at the Doctor, "You can't stop it with your sonic screwdriver?"

"No. There's no way to reverse the effects. I can make it less agonizing, but it's like being pulled out of a volcano and being thrown into a fire pit. It wouldn't make too much of a difference."

"JUST MAKE IT STOP!" Alyx yelled as he banged his head on the TARDIS floor.

Jack looked at the Doctor hoping beyond hope that there was another way. As if the Doctor read his mind he said, "It's the only way."

Jack closed his eyes before tears would start to come out of them. He grabbed his head and twisted it to the side in less than a second. Then everything went silent. Jack quickly turned around and walked back towards a small chair that he saw after then Doctor used his screw driver to turn the lights on again. Then Jacks tears came out.

The Doctor felt really bad for what he had just done. 'It was my fault that he had to kill him' he thought to himself as he got to his controls and pulled some switches. 'This is the second time today that he's had to kill somepony that he's known for almost a thousand years; even if they were trying to kill him.'

Jack was just looking down at the floor letting his tears roll off. They then heard the door open and it was Derpy with Spitfire. Spitfire collasped on the floor as Derpy said, "She's coming! Did..." he question was answered as she saw Alyx on the floor. "What happened to Spitfire!?" The Doctor and Soarin asked seeing the blood coming from her hoof and the holes that looked like teeth marks.

A very angry Jack got up and moved towards the door ready for Astrid, while Derpy told them what had happened.

"Astrid bit her. Jack said that not even he knew what happens to pegasus that get injected with the venom from vampires."

The Doctor quickly scanned her but he couldn't get a clear conclusion as to what was going on. Any time one thing showed up it changed to something completely different. "This doesn't make any sense!"

Jack saw Astrid literally bursting through the doors. He grabbed the door handle and opened the door as hard as he could when she was about to plow through it which made her fly back a few feet into the last cart and make a dent the shape of a ponies face on the door. He threw the door out of the way and placed his hooves on her throat and pushed down with all his might He could feel her throat slowly being barricaded forever.

Astrid could feel herself start to black out. She was trying to break away but Jack was too strong for her while his front hooves were pushing down on her neck and his back legs curling around her so she couldn't move.

The Doctor told Soarin to comfort Spitfire really quickly as he went to talk to Jack, "Jack think about this!"

He didn't respond. He stayed on her.

"KILLING IS MAKING A CHOICE!" the Doctor yelled at him. "The other times you had to kill them! You don't have to kill her! Jack! This is genocide!"

Jack let go of her and Astrid tried to breath, but she couldn't very well since her walls were too far in. She put her hooves to her throat and said, "I can't breath!" in a very very week voice that also sounded rough and low.

Jack, "She's not going to be able to do much without enough oxygen in her lungs. I'll take her in." He grabbed her and tied her up to a chair before they could say anything more.

The Doctor went back to Spitfire who had started screaming. "Spitfire! Listen, you're going to be ok! Even thought I couldn't get an accurate reading you will survive this!"

Her eyes had gone white and her fur and feathers were turning brown. "Doctor!" Jack said already have seeing this part before. "This always happens! I've never known what else e happens though!"

The Doctor scanned her again and it still showed the same thing, "Wait! She's mutating! That's why I can't read her! If she survives this she might not be the same!"

They all started at her as she grew a bit in size and height whith all of her the color brown now. She was screaming really loudly now and her wings had actually turned into another set of hooves, but these quickly changed again as they grew claws and looked more like griffon claws on all six of her hooves. She also grew really sharp teeth as her muzzle grew a bit further out too. She growled and shook around as if she was in agony and then she passed out. They decided to get close to her again once they saw that she really was passed out, but then they saw her turning back.

"Doctor! What is going on with her?" Soarin asked getting next to her as she was now completely back to her normal self again.

He scanned her again and everything came out normal. "I have no idea!"

"Is it safe to be around her?" Jack asked keeping his distance even though he was indestructible.

"I... I don't know! My screwdriver isn't showing anything!" he said scanning another time. Still nothing.

Spitfire turned around and everypony backed up looking at her. She starred at them, "What's going on?" she said looking from one to the other. "Doctor?"

The Doctor got next to her and looked her in the eyes. She blushed. He leaned closer and looked her directly in the eyes. He couldn't see anything and knew one thing that would tell him if she was her. He kissed her deeply but kept his eyes open. She went wide eyed and her wings popepopped out but then she closed her eyes and kissed back. Right when she started kissing back he pulled back and knew that she was fine...well not fine but herself. She looked at him panting as if waiting for him to say more but he just stood up. "She's fine. Let get to the TARDIS and get this over with." He turned around and walked into the TARDIS. Spitfire stared at him dreamily.

Jack stayed near the door holding Astrid after everypony walked in. The Doctor needed a few minutes to fix enough of his TARDIS to teleport again.

Astrid said to Jack in a week voice, "You tried to kill me. You are turning into a vampire. All it took was the right group of ponies. *coughed*

Jack was crying now, "Never. I wanted to kill you to save you the pain from finding out."

Astrids smile left her, "What?"

Jack, "I had to kill Alyx. I'm so sorry."

Astrid was getting mad now and tried struggling to break free, "You liar!" she tried to yell but he could barely even hear that.

Still crying, "I'm so so sorry. You're the only one left. I never wanted any of this for you guys."

"I'm going to kill you!" still trying to break free, but no where near enough for Jack to even get a better hold of her.

"Ok!" the Doctor yelled to him, "We can teleport once more before she completely gives out. We can probably squeeze one more after that if I don't stop it so you're going to have to do it quickly."

"Just kill me!" Astrid tried yelling to him again. "If I ever do come back I will kill you. I swear to you," she said in between coughs.

Jack couldn't say anything to her, "Let's go. I'll do it quickly."

Astrid was now trying her hardest to get out but she was too week. Soarin' came next to them and tied her leg to a cinder block, "Will this hold her?"

Jack, "Yes, she's too week to do anything."

Astrid tried to yell at them but Soarin' didn't hear anything she said. "Alright, quickly!" the Doctor said to them.

Astrid yelled to Jack as he opened the door and got ready to through the cinder block out, "I hate you Jack!"

Jack threw the block out which was followed by her. Before she flew out he said, "I know," just loud enough for her to hear, then she was sinking into the water. He noticed that she was trying to break the rope before she actually hit the water, but the door closed a few seconds after that.

"Hang on! It's going to be a bumpy landing!" the Doctor said as the TARDIS started acting up and started tossing them from left to right.

They landed with a thud and everypony was sent flying towards one wall. They all got up once they felt that the TARDIS had stopped and asked each other if they were ok, and helped each other out.

The Doctor helped Spitfire up and then Derpy. Soarin' helped Jack up since he landed on top of him. "Sorry about that."

Jack, "It's alright. Couldn't even feel it," he said still depressed.

Soarin' felt bad for him, but he didn't know what to say or do. He looked over to the others and they were also felling bad for him.

Derpy spoke first, "Jack, we're sorry for what happened, but it was inevitable."

Jack, "Yes, I know, but I could have put a little bit more thought into my actions."

Doctor, "Stop beating yourself up. This was more my fault than yours. If I would have been smarter I would have though of a better way to get rid of Thommas, plus it was my faut for showing up late when you were battling Awstin and it was also my fault that you had to kill Alyx. If I would have though quicker you would have never had to kill anypony."

Jack got mad now, "It was your fault! You made me kill almost all of my species!"

"Yes but if it wasn't for me you would have killed Astrid. I saved your species."

"Ya, the only one that I actually wanted to kill is the one that lived. You think I wanted her to know that everypony she loved was dead? She wouldn't have had to live with that pain."

Doctor, "Killing is never the answer and should barely even be used as a last resort. They deserve a second chance."

"You don't know anything about this!"

"Yes I do! I've had to let go of so many of my companions! You don't know how many of them have died!"

"What? This happens to you that much? Why would you put the ponies you love in harms way?"

"Cause I'm a stupid and lonely Time Lord. You think it's easy living without anyone else like you? You still have Astrid just in case everything else goes wrong. At least you're not alone in this universe."

Jack had no idea what to say. He didn't know that he was the last of his species. Now he felt bad for him. "We... we should get to bed. It's been a long day," Jack said as he opened the door to see that they were deep in the Everfree forest which was getting dark since the sun was going down. "Looks like we're going to have to stay in the TARDIS for the night. Do you have any rooms in you ship?"

"This place is basically my home. Of course I have rooms. More than you can imagine." He went to his controls and opened a compartment full of keys. He pulled four out and tossed one to each of them nearly dropping them. 'How do they manage to grab things with their hooves so easily?' he though as they caught each one with ease. "Just go in that direction," he said pointing to an opening, "and thats were all the rooms are. The numbers are on your keys."

Derpy asked, "Aren't you going to bed Doctor?"

"Not yet. I want to see how much damage was caused to my TARDIS," he said as he started checking out things on his controls that were completely unresponsive.

Derpy thought to herself, 'I wish there was something I could do to help. He seems so sad...' she looked back at him, '...and hot! Maybe I could... No! NO! He's not that kind of stallion.' Looks at him again, "*sigh* I wish he would just chose me already,' and continues walking to her room.

The others had already walked into their rooms except for Spitfire cause hers was the farthest, 'Maybe I could help him. He's going to have to come through here anyways. What if I just tried?' Spitfire though to herself.

The Doctor was at his controls and decided that he would need to make some major modifications to his TARDIS. "I'll get started in the morning," he said to himself as he started walking towards the rooms.

Right before he got to his Spitfire opened her door. He looked at her confused. "Sorry, I heard you walking by," she said nervously.

Now the Doctor was even more confused, "But these rooms are completely sound proof unless somepony actually knocks on the door. You could be screaming as loud as you can but not a single sound will escape from any of these rooms."

Spitfire shuttered, 'Perfect,' "Ok, the truth was that I can't sleep."

"Ya, well I guess with our day being like it was it might be hard for me to get some sleep too."

"I, could probably help you with that."

"Hm? What do you mean?"

"Well, I had something in mind if you wouldn't mind me trying."

"Mh, I don't know. I'm pretty beat, so I'm going to have to pass this once. Maybe next time alright?" he said as he walked towards the next room.

"Ok, next time." 'Darn it! So close! Maybe next time,' she thought as she walked back into her room.

Now with two extra companions things are going to get really busy for the Doctor.

The Doctors theme music Please!

The Doctor, Spitfire, Soarin', Derpy, and Captain Jack Horseness will return in "A Technical Error"