Well here is the third chapter most of the questions are answered within the chapter but a few aren't please hang in with me, I will get there. Thanks for all of you people who read this story weather it was when it first came out or right now. 130 hits in 24 hours, thanks guys so much! Sorry for rushing the story a bit, But I felt like I needed to get here, next chapter will take a little longer, but I will go into much more detail. Thanks for your patients.

Tron had long sense been against his decision to explore the ENCOM mainframe server but this was insanity. Starting off with when he had first entered the ENCOM server not one program had thoughts. Now, he was pitted against one with thoughts. This program was defiantly hostile. He had decided that after almost being killed on his lightcycle. Now he was locked in mortal combat on a lightcycle against something that he had never before encountered. He thought to himself "C'mon, c'mon, just a little faster and then I've got him, and then what? I'm just going to derezz him as if I were Rinzler again? One problem at a time, there's nothing keeping him from derezzing me at this very moment! Just take it one step at a-" then suddenly out of nowhere his opponent landed in front of him and he got one more good look at him... he thought that the face looked familiar, but his suit was pure black and only black. He was hardly visible, and his lightwall was kind of like a shadow. Then Tron slammed into his light wall. One second he was in the air, the next on the ground. Then the program walked up to him.

"Well, Tron I didn't think that you'd really survive the reintegration" said the mysterious program

"Where do you know me from?" Tron violently answered.

"How do you not remember me?" the mysterious program answered.

"We've nev-"

Then, suddenly Tron had a flashback the Master Control Program from the original grid...

"You can't be the MCP he died about 1250 cycles ago... how?"

"Dillinger, that's how. But don't think that you will be warning anyone anytime soon, if ever."

Then, suddenly without knowing why, Tron was in the grid.

Sam was finally at home, away from all of the hassles of his new job, and done transporting his father's laser lab to his house.

"Sam you look exhausted, you really need to go to bed, it's already midnight." Quorra said

"I've got the day off tomorrow and I'll sleep in, but I really need to look at the grid and find out exactly what's happening"

Sam was exhausted, but he wanted to find Tron/Rinzler and talk with him. Quickly, he accessed the file and the location log said that he had indeed been in ENCOM's main server. So Sam opened up the terminal.

User: Hello once again, Rinzler

Tron: who are you anyway?

User: Why should I tell you, so you can kill me?

Tron: you must be Sam Flynn...

User: Yep, you tried to kill me and my dad

Tron: I've changed...

Then suddenly Sam heard the all too familiar sound of the digitizer charging and then suddenly Quorra was being digitized into the grid... "What the? What just happened, I didn't do tha-... RINZLER!" Sam had just enough time to think that before suddenly HE was being split into a million pieces and digitized into the grid too.

Tron had been at the I/O tower talking with a user that turned out to be Sam, and then suddenly he had accidently turned on, targeted and digitized both Sam and Quorra. He didn't know that that had been possible but it had happened.

Sam had conveniently digitized right next to Quorra, and was very glad because he wasn't sure he could have found her if he hadn't. Sam reasoned that Tron was at the I/O tower. "Disc activated" he herd the system say as he activated his disc, and so did Quorra.

"This guy is an insane maniac! What was he thinking?" Quorra angrily yelled

"Um, Quorra, the laser can only be activated from the outside, or at least it's supposed to" Sam said.

"Sam, behind you!" Quorra yelled, but it was too late, a disc hit Sam. Or at least she thought it was a disc. Sam had just heard her when he saw a disc pass through his chest, but nothing happened.

"What the?" Was all Sam could manage. From what he had seen, the disc was slightly transparent, yellow, and came from nowhere.

Tron had just left the I/O tower when suddenly he saw ghosts, he saw about five and then no more. "What in the world is going on here?" he thought, "Those must be a new type of program. Who initiated a new program? I haven't authorized any new ones, and neither has Flynn." He tried to derezz one of them, but it didn't work, his disc passed right through it. He thought he'd even seen a light jet, but then everything was gone. Then he noticed that he hadn't fallen asleep that night. He looked down and was horrified to find that the nice blue lines of the grid had turned green and jagged. Not much of the grid was affected, only about 1 foot in all directions around him. As he started to walk away, he noticed that the distorted lines followed him, but why?

Only a few minutes before, Sam and Quorra had just made it past the outlands and onto the grid. They activated their lightcycles. They were zooming toward the I/O tower to find Tron, when they spotted a green glow in the distance, so they headed toward the glow.

Then, finally they were there. They had made it. They were surprised to see Tron standing in the center of the green glow.

"Rinzler!" Sam yelled ad he jumped off of his lightcycle, and barely missed Rinzler with his disc.

"Sam easy, don't derezz him yet" Quorra said as she made a lightwall between Rinzler and Sam.

"I'm so sorry Sam, but in the original grid I saved your dad's life" Rinzler said

"Yeah, only to take it later!"

"Sam, that was CLU". He explained, "He repurposed me and reprogrammed me! Sam I'm sorry, I'm here to make things better! Sam it's Dilli—" In mid-sentence, he suddenly stopped.

"Strike 1, Tron, you careless program, I'm in control now! Flynn, time to derezz!" Tron said, but it wasn't Tron's voice.

Then Tron lunged at Sam. "You want to fight, I'll fight you!" Sam yelled, as he charged at Tron who had already broken through Quorra's lightwall. They charged each other and Sam cut Tron's arm off and Tron collapsed. Quorra brought him to the safe house and had him tied to a chair. (Sam had rerezzed his arm against his own will) Sam and Quorra told Tron their story and Tron told Sam and Quorra his.

"We both saw ghosts, Quorra do you have any Ideas?" Sam asked

"Sam, according to the system records the reintegration failed and your dad turned everything into ghosts, so that must mean that CLU is saving his power to bring everybody back." Quorra explained

"And if the MCP came back that means that Sark must have too" Tron said

Then suddenly Tron turned on Sam and Quorra, again. He quickly broke through the rope. Sam stabbed and thought he had derezzed Tron, but he was standing there, a virus on the floor, derezzing.

"What in the world, how did that get there?" Sam said

"Sam it must have been the MCP he gave that to me so I couldn't tell you anything." Tron replied

"Or so Dillinger could digitize Quorra and I from the outside." Sam replied

Then CLU's ghost appeared and absorbed what little energy the virus had left. And in a fleeting instant he was gone. Then suddenly in an instant burst of light similar to the reintegration, everything was back. The buildings, the game arena, the programs, everything.

All was silent in the safe house.

"A war must be coming, worse than ever before and every program probably will participate" Sam said.

Then the three of them were left speechless.

"And Dillinger probably brought back most of the other programs from the original grid" Tron murmured.

"At least you've got me" a voice said behind them.

Sam turned around and there stood Kevin Flynn, The Same Kevin Flynn that created the system, user and all.

After about fifteen or so minutes hugging and getting back together and Kevin telling his story Kevin said

"Tron, I'm sad to say that that virus you had also infected the grid. It's dying as we speak. And the reason that you slept the first two days is that it was the system recharging its energy so that it would live."

"Dad, The MCP, Sark, CLU, and Dillinger they have done all of this. There is a war coming I've no doubt about that." Sam complained

"I need some rest, but tomorrow is the dawn of a new era and time for some better weapons and preparations." Kevin tiredly said as he went to bed. Leaving Tron on patrol and Sam and Quorra to get some rest as well. Tron sat there wondering what the next day would bring and he could have sworn that he had seen figures entering the grid… figures more ancient but more powerful than them all.

End of Line.

Well, what did you guys think, please review if you have anything to say (or pm me if you don't want it public). Thanks it may take a little longer to develop chapter 4. Stay with me. Thanks.

Ch. 4 will be out 2/12/11. Do you want many short chapters or a few large chapters. (It will still be much more than a few chapters, I've got a long way to go.)