When, The Doctor, Rose, and Twilight returned to the library, Twilight said, “Well, I’ve met your friend, so how about you meet mine?”
The Doctor and Rose looked at each other. “Well, why not.” The Doctor said.
“Great!” Twilight shouted. “I’ll go get them!” Twilight ran out the library door in search of her friends.
“So, where’s the TARDIS?” Rose asked.
“No idea.” The Doctor admitted, “To find it I need to know exactly where you landed. Point to the location.” The Doctor grabbed a map of Ponyville and its surrounding land.
Rose looked for while. Because she had the Doctor’s knowledge of Equestria, she knew where everything was. She pointed to exactly where the Doctor thought she had landed. “Here,” She said.
“That’s exactly where I thought you had landed.” The Doctor said. He did the math in his head. He grabbed a pencil with his mouth and drew an X on the map a few miles from where Rose had landed. “The TARDIS is there.”
“What’s the TARDIS?” a voice behind them asked. The Doctor and Rose turned to see a blue pegasus with a rainbow colored mane behind them hovering above the ground.
“RAINBOW DASH!” Twilight shouted, from behind them. “Don’t asked questions you don’t need to know the answer to.
“Aww, lighten up Twilight, I was just curious.” Rainbow Dash replied. She turned to The Doctor. “What’s this metal doohickey?” She asked tapping the sonic screwdriver.
“That’s my sonic screwdriver, it opens things” The Doctor replied.
“A sonic screwdriver?” A pink pony with an even pinker mane shouted. “Does it drive screws places sonically?”
“No, it just opens things.” The Doctor replied.
“That’s Pinkie Pie,” Rainbow said. “She is SO random.”
“Another unicorn with a brilliantly styled purple mane walked up and said. “That’s and interesting looking tie. Have you tried bowties? I hear their really in style at the moment.”
“No I haven’t tried bowties,” The Doctor replied. “And I prefer my own tie, Ms…”
“Rarity.” Rarity replied.
“Well thank you for the suggestion Ms. Rarity.” The Doctor replied.
Another pony with an orange-ish coat, blonde mane, and a cowgirl hat, trotted up. “Name’s Applejack,” Applejack said
shaking The Doctor’s and Rose’s hooves. “Hope y’all like yer stay in Ponyville, and if you feel hungry, come on downs to Sweet Apple Acres fer the finest apples in all of Equestria.”
“Thanks for the idea Applejack.”The Doctor said. He spotted a pegasus huddled in a corner with a yellow coat and a long pink
mane. The Doctor walked over to her.
“I’m the Doctor,” he said quietly. “Who are you?”
The pony didn’t look at the Doctor but said very quietly, “I’m Fluttershy.”
The Doctor had very good hearing. “It’s nice to meet you Fluttershy. My companions name is Rose. Why don’t you come and meet her?” The Doctor suggested.
“O-okay.” Fluttershy said. She got up and walked over to Rose. “I’m Fluttershy. What’s your name?”
“My name’s Rose Tyler. It’s nice to meet you Fluttershy.” Rose said.
“Likewise.” Fluttershy responded.
The Doctor walked over to Twilight. “These are some nice friends you have.”
“They are one in a million.” Twilight replied.
“How did you meet them?” The Doctor asked.
“Well,” Twilight explained, “It was the Summer Sun Celebration. Princess Celestia asked me to make sure that things went okay in Ponyville. This was the year that Nightmare Moon would return. So I ended up meeting all the different ponies in town and when Nightmare Moon did return we went on a quest through the Everfree Forest to get to the castle of the Royal Pony Sisters, to find the Elements of Harmony.”
“The Elements of Harmony, I think I read about those.” The Doctor said.
“You did.” Twilight said. “Anyway, in the forest I found that each of us represented an Element. Applejack represented honesty, Rarity generosity, Pinkie Pie laughter, Fluttershy kindness, Rainbow Dash loyalty, and I represented magic. Together we found the Elements and used them to defeat Nightmare Moon, and return Princess Luna to who she really was. Then I decided to stay in Ponyville.”
“I don’t blame you.” The Doctor said. “If you have friends, it’s always good to stay with them.”
“How about you and Rose?” Twilight asked. “How did you guys meet?”
“Rose was looking for someone who was in her work, when living mannequins attacked her. I rescued her and we saved the world from destruction. She’s been traveling with me since. I was a different man then. Well, I guess I should say different stallion in this world.” The Doctor explained.
“What do you mean?” Twilight asked.
“Time-lords have a way of cheating death.” The Doctor explained. “We regenerate, by changing our looks and slightly changing our personality. I became similar to I am now.”
“Interesting. How exactly does regeneration work?” Twilight wondered.
“It's a biological process triggered when I'm dying. To stay alive I change my whole body, every single cell, but keep all my memories. Due to every cell changing, my personality changes as well.” The Doctor replied.
"Wow." Twilight said. "So how many times have you regenerated?"
"I've regenerated about ten times." The Doctor explained.
"So, that makes you the eleventh Doctor?" Twilight asked.
"No, I'm the tenth Doctor." The Doctor replied.
"But, you just said that you've regenerated ten times." Twilight said.
"I did say that, yes." The Doctor said.
"So you're the eleventh Doctor." Twilight explained. "So tell me why you say you're the tenth Doctor."
The Doctor sighed and knew that Twilight wouldn't let him off the hook. "I once fought in a war against a race of emotionless aliens called the Daleks. To fight in it, I regenerated into a warrior. I fought and I killed hundreds to thousands of Daleks, without remorse. When I deemed that the war could go on no further, I used a weapon called the moment to destroy my own people and all the Daleks and ended the Great Time-War.
"During that time, I lost the ability to be called The Doctor. When I was that version of me, I committed double genocide. When I regenerated again, I berried that version of me into my memory, and was able to call myself The Doctor again. And because I destroyed all my people, I have to live with that guilt for the rest of my life."
Twilight stared at The Doctor in shock, not believing that he was capable of such and act. But before she could reply, there was a scream heard outside. Everypony became silent. “Rose, Twilight, come with me.” The Doctor said.
They left the library and went to where the screaming was heard from. The Doctor couldn’t believe his eyes. He saw ponies made of metal marching down the street repeating the same word without their mouths moving. “Delete, delete, delete.”
“Cybermen.” The Doctor said to himself. “Or in this case Cyberponies.” The Doctor turned to face Rose and Twilight and shouted, “RUN! Get back to the library!” and as the ponies ran back to the library his fears had been true. They had not come alone.