Note: This story puts a twist on original pokemon ideas. The shadows within this story are a spin-off of the Pokemon Colosseum, and Pokemon XD: Gales of Darkness games. I take no credit for Pokemon's creation of shadow pokemon, but I do take credit for the originality of: CSA-45, Shadow Trap, Hell's Storm, Cipher's Stand, and Darkness Eternal.
Prologue
Darkness cannot be avoided. Within the light, there is always a shadow, waiting… to strike.
A large building stood near the edge of town, although no one dared to near it. This building had been the site of the shadow Pokémon project a few years back, only to be stopped by a kid. Though this time, there would be no turning back. Inside the building, an experiment was starting, an experiment that would change everything.
A tall man, with blue hair, stood on a platform. He was looking at a cage in the middle of the room, the only things separating him from the cage being the platforms guardrail, and air. Two other people were in this room, one on each side of the platform; both having controls in front of them.
The tall man in the middle spoke suddenly, his words heard in a harsh voice; obviously weathered through troubled times.
"Begin the experiment," Was the only thing the man said. The two scientists looked at each other before starting up the machine, slowly upping the power. As the power increased the room continued to get darker. Something was forming in cage, the energy from this object taking away the light of the room. Almost as slowly as the experiment had started, the room became pitch black; until the scientists turned off the machine.
The room lit up considerably as soon as the rest of the energy had gone into the object, the object still contained by the cage. Now that the room was almost completely lit up, two larger cages could be seen near the top of the room, hanging by chains. An Yveltal was in the cage to the right, and contained by the other cage was a Giratina, the Giratina only staying willingly.
Two spotlights soon lighted up the first cage, which was on the floor. Inside this cage however, was nothing more than an egg. This egg was two shades of green, a ridge on the back of the egg, showing it to be an Axew egg. What was peculiar about this egg though, was the Symbol on the front of egg, covering the majority of the front of the egg. This Symbol appeared to look like a 'S', but it had a c going up at an angle, through the middle, so that the 'C' cut the S.
Cipher's Scar was upon the egg, dooming it to its dark fate of serving Cipher, the one man upon the platform.