Sorry this chapter took so long, I've been working on a few other fanfics

Anyway, here's chapter 2.

Chapter 2: Why?

Light.

She could see light.

Her vision was too blurred to make out any detail, but she could tell she was in some type of hospital-like room.

Samus' dark twin groaned and tried to sit up, only to be struck by more cursed pain. Dark Samus let out an animalistic whine and lay back again.

That small effort had cost too much energy. She fell asleep once more.

She woke again sometime later. This time her body was suffused by an odd tingling.

Dark Samus tried to sit up again, only to realize she was strapped down now. She looked to see what was causing the tingling.

There were strange mechanical arms spraying blue beams of light on her. Wherever the beams touched, the pain lessoned and ceased alltogether. She wondered how. They weren't phazon beams.

Across the room was a figure so covered in wires and machinery that Dark Samus could only see its vague shape.

After a few minutes the arms halted their work and retreated into the floor. She stiffened as the mass of machines across the room began to unwind itself and retreat into the floor. If the thing inside decided to attack her, she wouldn't be able to do much strapped down as she was.

When the figure inside at last revealed itself, Dark Samus suppressed a gasp. It was like looking in a mirror. The figure was covered in dark blue, almost black armor just like she was.

But no, this one was different. It was taller, larger, more muscular. Dark Samus' heart fluttered when she realized that "it" was male.

Her own reaction to this gave her pause. Why had that happened? She had been around males before and had never had that happen to her. What was so different about this one?

The armored figure got up and stretched luxuriously before walking up to Dark Samus' side.

"Damn kid, you really got banged up! What the hell happened to ya?"

His manner seemed very human. For some reason, Dark Samus' heart sank at that. But why?

For now, she just needed to answer his question. But how would he react to the truth? If he was human, he would kill her the second he heard. If he was the same as she was then............ she didn't know what he would do. She would just have to give a neutral answer.

"I don't know."

He grunted. Once more noticing she couldn't move she asked, "Why am I restrained?"

"You started spasming for a few hours. 'Had to strap ya down to keep you from hurtin' yourself."

So she wasn't a prisoner. That solved one mystery out of a hundred.

"How did I get here?"

He shrugged. "'Don't know. Ya just popped in here outta nowhere, and you were pretty hurt. So I put you in here and used the medical equipment to heal ya."

Dark Samus nodded. But for some reason, she couldn't keep her eyes off of him. After a few moments he noticed her staring.

"Lemme guess, you're wondering why I'm like this."

Another nod. That must be it.

He sighed. "Did you ever hear about the Valhalla incident several months ago?"

She nodded once again, deciding it would be best not to reveal exactly how she knew about it.

"Well, I was one of the PED troopers on board at the time. We had to push our suits to the max to try to hold back all the Space Pirates and phazon metroids. It proved to be too much, our PEDs overloaded. The other two were killed instantly (they could still be sticking to the walls where the explosions threw them for all I know). I had the luck (if you could call it that) to have a metroid attach to my suit when my PED tank exploded. All that phazon caused the two of us to fuse. Luckily the metroid was killed in the process, so it has no control over this body."

Dark Samus was suprised. So he was human.

"I knew I couldn't stay on the ship," he continued. "Any trooper that saw me would shoot me on sight." He shook his head. "I had to grab a transport and bug out. Later on, I found this place. I don't know who built it, bu I'm sure glad they did. It might be able to change me back to the way I was. This place even allows me to listen in on what's goin' on everywhere else."

Dark Samus didn't know why, but for some reason she didn't want him to do that. One other thing also intrigued her, though.

"Why didn't you think I was Dark Samus?"

He shrugged. "Dark Samus died when Phaaze was destroyed."

That was a relief. So he wouldn't suspect anything.

"By the way, what's your name?"

There was no way she could say her real name. "I'm............ Sarah."

He nodded. "Nice to meet you Sarah. My name is Jonathan, but you can call me Jon." He held out his hand.

Dark Samus looked at his hand, then at her own restrained one.

"Oh, right. 'Better unshackle ya."

He pressed a button on the wall. The shackles unlatched themselves and retreated into the bed.

Jon held out his hand again. This time Dark Samus returned the favor and gripped it with her own. The contact sent shivers all through her body.

But why?