They ran inside the TARDIS, Amy and the Doctor, laughing while they made sure the door was closed tight.
"Those birds can't get in, right?"
"Right. The door should hold them off while the TARDIS de-materializes." The Doctor flipped some switches on the console.
"Well, I better be getting to bed, I'm tired."
"It's fine, I'll see you in morning. Goodnight, Pond."
"Bad time to show Amy the set of 'The Birds'" he thought.
He went to bed shortly after Amy did. He climbed under his TARDIS blue covers and immediately started to fall asleep.
When Amy woke up, she quickly got dressed and headed for the console room, excited for a new, adventurous day traveling with the Doctor.
When she got to the console room, he wasn't anywhere to be found. "Doctor?" she called out. He was usually up hours before she was.
When she thought she heard his voice, she went to his room and opened the door. she saw that his room was pretty messy, with books and clothes (mostly ties and tweed jackets) and notebooks. He was lying on his back, shivering, the covers kicked to the end of the bed. Amy debated whether she should wake him up or just wait for him to wake up on his own, but she noticed how horrible he looked, so she thought she should make sure that he was okay.
"Doctor?" she shook him gently.
"Hmm?" he was, she could tell, not completely awake.
Finally his eyes opened "I –"
"I don't feel well." his voice was quiet, and his eyes were only half open.
"Yeah, that's what I thought."
"What time is it?"
His eyes opened a little wider "I should get up."
"Yeah." He swung his legs to the side of the bed, stopped for a minute, and then began to stand up. His legs were shaky. As soon as he stood up he sat back down. Amy had a grip on his arm, keeping him from falling.
He groaned "I have to get up."
"No, no you don't. You should stay in bed."
"But don't you want to go somewhere?"
"Well not if you're sick!"
"Lie back down." Her hands were on his shoulders, gently influencing him to get back into bed. He broke out into a coughing fit, sitting back up. This brought concern to Amy. She'd never seen the Doctor this ill before, in fact, she'd never seen the Doctor ill at all!
Her hand was on his back, that's when she noticed that he was warmer than usual. She didn't know what a Time Lord's temperature was supposed to be, but his was definitely higher than normal.
He sniffed. His throat was so sore it felt raw, and so he tried to avoid swallowing often, which wasn't easy. When his head touched the pillow, he closed his eyes and started to fall back to sleep. Then he heard fading footsteps "Don't leave." He said with a hoarse voice.
"I'll be right back."
Amy thought of her seven year-old self saying the same things that the Doctor was saying "Yes, I promise." She figured the Doctor wasn't completely there.
She made him some tea, and then returned to a sleeping Time Lord. She set the mug on his night stand and sat down in a chair next to a bookshelf in his room.
"Amy." He said.
"Yeah? What do you need?"
"Amy." Then Amy realized he was still sleeping. "I'm sorry I couldn't save him. I'm sorry I couldn't save Rory."
"Rory?" she thought to herself.
He coughed, and then sniffled. It was hard for Amy to see him like this. Usually it was him that was watching over her.
When he woke up, Amy was still seated next to him. He looked over "Tea?"
"I figured you'd like some when you woke up."
"I don't want to drink anything." he said, with his hand rubbing his throat.
"I know, but it's still warm, it might make your throat feel better."
He sat up and moved his pillow to his back. He didn't feel much better, but he definitely wasn't as tired as he was. He took a sip of the tea, making a bit of a face as he swallowed.
"So how are you feeling?"
The Doctor laughed, just slightly. "Not good."
"Well, what are you feeling? What are your symptoms?"
"My throat hurts."
"Yeah, I got that."
"And my nose is running."
"And my stomach feels funny."
"You mean you're nauseous?"
"I – I don't know."
"It's fine. It's probably been a while since you've been this sick, yeah?"
"Were you dreaming at all?"
"Well I heard you say my name . . . then Rory."
"Oh, probably brought on by the fever."
"Yeah." Amy really didn't think much of it after he said that, after all, she didn't even know anyone named 'Rory'.