"Keep those demon spawn away from me." The Doctor shouted at Pinkie Pie, "I HATE pears!"
The group had retreated to Sugar Cube Corner, where the Doctor was trying everything he could eat, the floor was a mess with the rejects. Meanwhile Twilight couldn't believe that this colt was the Doctor.

Twilight went up to him and poked him a few times, "Interesting," she said out loud.
"Twilight why are you bugging me this is a matter of great importance!" The Doctor said. "If I can't find something I like to eat then I might as well regenerate again!"

"I don't know Doc," Rainbow Dash said, "I think this one works for me." She put her hooves into a square shape.
The Doctor laughed, "Oh, Rainbow Dash, you are very funny. Why do I feel like I'm oblivious?" He asked himself.

Rarity spoke, "She was trying to flirt with you. Honestly how can you know so little about yourself?"
The Doctor looked up from his plate, "New body, new rules! The old me was so serious, I mean did you see how I handled the Dalecks? I shouted at them, But now I'm funny, brash and ridiculous!"

Pinkie Pie was certainly enjoying the new Doctor, "Yeah, your more ridiculous than me! And that's saying a lot." She ate half a cake in a single motion.

The Doctor looked up, "Sorry Rainbow I'll try to flirt back more often but right now I'm trying to learn who I-" he was interrupted when a spark of gold escaped his mouth. "Okay, it still hasn't been fifteen hours!" He continued to eat.

The Princess and Twilight were both very skeptical, between the two of them the princess finally made contact with him, "So, you just died? How does that feel?"

"I'm still angry at you," The colt replied, "And I don't know what I do when I'm angry yet." Twilight had a question that was actually relevant to the situation.

"How did you get here then?" She asked as the Doctor took a bite of an apple.
"Oh much better than last time!" He said to himself, "You see Twilight, when I regenerate I often give off a large explosion of pure energy, that stunned Luna and I ran as fast as I could!" Smiling he picked up another apple. "Okay I found my favorite food, now for a decent jacket!" He turned to Rarity, "Pockets please, I have a few gadgets I feel would suit be better." The Colt stood up, "But in the mean time, we have to stop Luna! I had a bit of enlightenment when I regenerated and I've found the best way to stop her while still letting her live."

"Well that's a relief," Celestia said, "But how?" The Doctor got a solemn look on his face and mumbled to himself.
"Bait," his voice got a tone of excitement, "We use something with an incredible amount of power as bait, that should get the time energy's attention!"

"No," Twilight spoke suddenly, "You aren't the Doctor, Rainbow and the Doctor always argued. He never put us in danger by using us a bait!" The Doctor looked down.

"When I regenerate, I change my whole persona, some new colt goes sauntering away." A tear formed in his eye, "It's not the first time it's happened, and it won't be the last." He looked up, "Besides, nopony told me I was drop dead handsome! I mean Rainbow Dash is flirting with me, that has to say something!"

"Hey!" Rainbow Dash yelled, then blushed a tiny bit, "Yeah."
The Doctor walked out the door. "It's not that dangerous, I'll stop it before it flies into you!" He looked at Twilight. Twilight began to laugh.

"I don't even know you?" The unicorn looked at him with a look of 'your clearly an idiot.' "And you don't know yourself!"
The Doctor got angry now, a different kind than before, a sad angry. "I didn't want to go!" He yelled at her, "you abandoned me, that's why I told Rainbow Dash. I knew she would stay loyal! After this, we are done!" He looked at her only, "You think your so smart, I'm a Time Lord! I see all that has happened, all that will happen." He was crying. "You have your friends! I have nothing! Maybe I just wanted friendship, but no, I get no one!"

Everypony in the room looked down except Twilight who was stuck staring into his ancient eyes. "N-no one?" She said in shock.

"Not a single soul," He calmed down, "Now get out, and-" he swallowed, "Don't, don't come back to the TARDIS. I understand if you all can't stand to not have her but-" He looked down, "No, it's time. Even a Time Lord can live too long." He walked out the back door. Leaving his companions in shock.

Rainbow Dash got in Twilight's face, "You killed him! He's marching to his death, and you just can't get over yourself. Did you hear him? He killed his only friend to save your life, and this is how you repay him?" She turned around, "I'm going with him!" Before anypony could give chase she was gone.

Twilight began to cry, "I, I didn't know." Those words echoed in her head, 'I didn't want to go! You abandoned me.' It was true, she gave up on him. He was alive and she treated him like a warrior treats a dead foe. Celestia tried to comfort her, but that fueled her sad pain into rage. "No, you did this." she raised a hoof to her teacher, "You told me he was dead!" She didn't believe a word she was saying, she just felt like she needed someone to blame. Her teacher saw this and spoke.

"Twilight Sparkle," she boomed. "If you care so much for him then why don't you give chase?" She winked at her, Twilight got the message and followed her teacher's advice.

Canterlot Castle

Luna's head was being flooded by information. What shred of emotion she had left was in pain, she saw an image of the Doctor dead by her powers, but soon the image gave way to something to else. A beat of drums, 1-2-3-4, over and over again. At first she hated the sound, but as her emotions burned up in information, she learned to love the sound.

"Not easy, is it?" The Doctor stood behind her, "Seeing the whole of reality before you must drive you mad." The voice in Luna's head ignored this being. "Well it usually drives all lesser beings mad, but not me. Newly regenerated and all!" Luna's head turned.

"So a Time Lord?" An insane voice said. "This body is weak, yours is new and strong!" She took a step closer, lowered her head, and a golden blast of energy shot out of her horn.

The Doctor puffed out his chest, and took the blast directly into his first heart, "Good attempted!" He shouted. "But you can't harm me for at least another five hours!" He had a smug face.

"We've accounted for this!" Luna said, and the Doctor's face turned to a state of shock, "This being can kill you! And when your dead we shall use your corpse as our own!" A different type of energy leaped from her horn, it was black as death itself. The Doctor prepared to lose, thought of all of his friends form his different life, Donna, Martha, Wilfred, Jack, Rose. They were all still there, apart from Rose of course. After a while he wondered why he felt no pain, he opened his eyes and saw her their, Rainbow Dash. Slowly and painfully dying. "No," he whispered, "n-no."

Rainbow Dash looked up at him, "I c-couldn't let that pretty face go to waste!" She laughed but immediately regretted it.
"You can't do this!" He was panicking, "Why would you do this!" Rainbow Dash opened her eyes again.

"W-whats y-your name?" She was fading fast, the Doctor saw this. She trusted him, He leaned down and whispered something into her ear. But before he could finish, it was too late.

The Doctor looked at Luna, no, he looked into the face of evil itself. "After I free Luna, I'm going to absorb you just so you can feel my pain! Then I'm going to die, and take you with me!" He got up, and started a speech, "Look through time, to a war, a great war, a war of time. Who closed the rifts?"

Luna threw another blast of dark energy from her horn, the Doctor stuck out his chest again and took the blast, he used the remainder of his hours into one blast of golden energy, the light shimmered around Luna, it flew into her and freed her mind, the particles from the time vortex were forced out. They searched for the Doctor, sensing his life force, they flew at him. But before they reached him, a noise came between them. Following this noise was a blast of violet energy. The Doctor looked to where it had come from.

The Doctor was astonished, "Twilight Sparkle." He said, "You came back!" He was happy to see his friend. However, Twilight ignored him and held Rainbow Dash in her arms.

Twilight sobbed into the Rainbow mane, "Is their anything you can do?" He looked at the particles, still floating from the blast.

"Of course!" He said, "But I need you to trust me!" Twilight didn't speak, she just nodded her head. "Fling her into those particles! Trust me, this will save her!" Twilight hesitated, but did as was instructed. Twilight was careful with her friend's body. Once immersed into the particles, Rainbow Dash started to disintegrate.

"You said it would save her!" Twilight screamed. Resenting her decision to trust him.
"Rainbow Dash!" The Doctor called, which seemed to get the attention of the time particles, "Remember how much you hat it when I fly the TARDIS during your naps? Or how you could 'easily out fly it'? Go show that box who's boss!" He demanded, the particles flew off back to PonyVille. The Doctor turned to Twilight, "Can you teleport us to PonyVille?"

"Of course! I'm on a huge adrenalin rush!" She said as he stepped closer. The two friends disappeared.

PonyVille
The two appeared outside the library, the Doctor looked at the sky, "I have to get to the TARDIS before she does!" he yelled as he ran off. He easily found the alley where he left it, "Please be done!" He opened the doors, it was complete. He didn't take the time to notice it. He ran to a hidden hatch, the only thing that was exactly the same. "Come on! OPEN!" He shouted, but was distracted when he heard a noise similar to a microwave being finished. "The Sonic!" he said in excitement. The Doctor picked up the chrome tube, pointed it's orange light at the hatch and suddenly it opened. "YEAH!" he said.

The Time Vortex particles flew through the doors, they felt the heart of the TARDIS. They streamed into the hatch, the TARDIS gave off an alarm. A hologram appeared, Amelia Pond, as a pony. "Filtering living cell matter, error. Template required."
"An equine, no a pegasus!" The Doctor shouted.

"Biological template required," Amelia Pond said in a 'duh' sort of way. The Doctor thought, It was dark out, nopony would be awake at this hour.

"Me, use me!" He shouted, and waited for something to tell him he wasn't compatible.
"Biological template accepted, TimeColt, pegasus." Amelia Pond's ghost disappeared, in her place golden particles gathered and formed together. They began to take shape, resulting in a cyan pegasus, with a rainbow colored mane. Once they had completed there reforming, Rainbow Dash stood in the TARDIS. After several seconds, she fainted.

PonyVille Hospital

Rainbow Dash awoke, her friends passed out in her hospital room. It was eleven o'clock at night, late for most ponies, but she had just woken up. Her silent thoughts were interrupted by the Doctor.

"Welcome back to the land of the living," he said. Rainbow Dash looked at him, remembering the sacrifice she had made to save him.
She spoke, "But I was dead." she whispered. "How am I alive?" She looked at the Doctor, who picked up a stethoscope. he put it one her and held it up to her heart, "Well its pretty obvious I'm breathin-" she was interrupted when he moved the stethoscope to the right side of her torso. She looked up at him, "I-I'm like you." She said.

"The TARDIS needed a template to rebuild your body," He said, "I chose myself." A tear built up in his eye.
"Your not alone anymore." She smiled at him, "You have somepony now." Rainbow Dash leaned in and whispered something in his ear.

His eyes widened, "You heard me?" He asked, she replied with a nod of her head.
"I heard you to the ends of the earth and beyond." she said, "I heard you between the mountains of solace and solitude, the echo of your existence. I WAS the time vortex!" She said, "I know so much about you!" He looked down.

"Is it too much?" He asked her, she shook her head.
"It's a warm feeling, like I see every good thing that could be." She put it simply.

"Rainbow Dash," the Doctor said. "When Twilight wakes up tell her I forgive her. I have to take the TARDIS for a quite run to Saturn and back. Just to break her in!" And with that he was gone.

Next Chapter: Where have you Been? Estimated time remaining: 17 Minutes