Ok. since I probably wont be re-writing this story anytime soon, I figured I would go ahead and put up the first edition here. The original premise of the story is to better explain the parts we dont know about the show such as what happened to Franz and Aelita as well as how the kids found the super computer. Keep in mind though that when I first started writing this, I didnt see a whole lot of episodes yet so there are plenty of little contradicting points in here.
The story is currently up on FF.net: http://www.fanfiction.net/s/2663885/1/