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The Doctor searched long and hard. He had traveled through galaxies unheard of, sometimes more than one per day. He knew that Amy and Rory were anxiously waiting at home on planet Earth and he couldn't fail them. Summer was nearly ending, and it would be getting colder, a further reminder to them of the emptiness in their hearts.
Finally, he stumbled upon a lead in a most peculiar way. The Doctor recalled a day long ago where he had visited Captain Jack for the last time shortly before his regeneration to his current body. It was a bar on a distant planet filled with travelers of all species, and the Doctor stopped in for a quick drink to ease his stress. Sitting a few stools down was a human soldier who looked oddly familiar. The Doctor cautiously approached and the soldier's eyes widened.
"I know you," the Doctor stated.
"I know you too, but then again, who doesn't?" responded the man, obviously a bit tipsy. "You're the last of the Time Lords."
"And you served under Captain Runaway at the Battle of Demon's Run working for the Silence," said the Doctor, taking a seat on the stool beside him. "What are you doing here, away from your companions and your headless monks?"
"They aren't my companions any longer," replied the soldier. "Just kept the uniform because it gains me some respect around here." He chuckled.
"What happened?" the Doctor inquired with his trusting manner.
"They killed my husband," said the man somberly. "Just took him away and chopped off his head. Wanted to make him one of those monks. He never volunteered. They just took him from me. I resigned after the battle."
"Tell me," the Doctor began, "do you know anything about where they might have taken Melody Pond?"
"I signed an oath to the Silence to remain, well, silent," the ex-soldier replied. He chugged the rest of his beer. "But to seven hells with them. They could be watching, though. What I can say is…" He lowered his voice and the Doctor leaned in. "…she's where you'd least expect them to take her: in plain sight, far too close that you'd even think to investigate."
The Doctor rose. "Thank you, Mr., uh…"
"Thin one. You can call me the thin one. My husband was the fat one. We were always just the thin/fat gay angelican marines. No need for names. Like you, Doctor."
"Well, thin one, you've been of great assistance. I'll just be off…" The Doctor sprinted to his TARDIS and set course for planet Earth. As he traveled through the time vortex, he thought of possible places that she might be. Obviously in a crowded city, where no one would think twice about a strange woman with an eyepatch holding a baby. Beijing, perhaps? No, they'd stand out there. It would have to be somewhere in Europe, Australia, or North America.
He landed first in Sydney, asking his connections if they'd seen anything of the sort, and to keep an eye out. He searched through every known secret tunnel and alleyway, and even interrogated average citizens. No one seemed to have seen them.
He travelled next to Rome and Athens, where there were so many ancient underground homes and temples that could be ideal hiding spots. He stumbled upon a clan of rather sketchy homeless Greeks who believed that Zeus would send his messenger to save them, but nothing else of interest.
The Doctor's next stop, New York City, would take more time. On the crowded, dirty streets of Manhattan, he didn't even bother asking citizens if they'd seen anything out of the ordinary. All you had to do was go to Times Square to see many sights out of the ordinary. Therefore, Times Square was his first place of interest. The Doctor enjoyed some cotton candy from a street vendor and almost had his sonic screwdriver stolen by a pickpocket, but no eyepatch woman.
Then, he had a brilliant idea. He hailed a cab to take him across the city to the "ghettos" where the poor still struggled to this day. He knew there were many alleys and abandoned homes where experimenting on a baby would not be found out.
The Doctor knew instantly when he had found the right place. "Yes, yes," said the old man who answered his knocks. "We keep the orphanage open for one very special child. Would you like to come in?"
"Yes, please," responded the Doctor.
The man led him up a flight of creaky wooden steps with graffiti on the walls and into a messy office. "Tea?" he offered.
"No thank you," said the Doctor, glancing around. "I would like to see your special child."
"Oh, no," replied the old man. "They wouldn't like that very much. Tea?"
The Doctor frowned. "No, no thank you. Who wouldn't like that very much?"
"Who wouldn't like what?" was the man's answer.
Suddenly, the Doctor heard the wailing of a child. He pulled out his sonic and bolted down the corridor toward the cries. He slowly pushed open an unlocked wooden door to witness a horrifying sight. There were wires hooked up to the child's head, attached to who knows what. "Oh, Melody. What have they done to you?"