Sorry about the epically long wait for this one. Here's the next chapter, hope ya'll like it. I am working on at least 4 other chapters for my other stories so i shouldn't be long updating them.

Chapter 3- Secrets

Floating in a somewhat painless haze, Tony tried to gather the scattered parts of his memory over the past couple of weeks. He remembered there being an undercover op and being forced into to it, but after that it was blank, as if there was a void where his memory should have been. The pain throughout his body was forcing him awake; he couldn't bite back the small moan that escaped his split lips. Feeling arms trying to hold him down, his flight response kicked in and he tried to shrug them away.

"Easy, Tony, calm down." ordered a gruff and familiar voice. Tony settled immediately. The arms trapping him disappeared but the voice did not. "Tony, open your eyes." the tone more forced full this time.

Doing as he was told he peaked a little, thankfully there was only a dim lamp light on, he feared anything else might cause his head to spin, not that it didn't swirl a little as it was. His vision cleared a little and he saw the concerned faces of Gibbs and Ducky.

"What happened?" Tony asked weakly, both Ducky and Gibbs frowned. If Tony didn't remember what happened then they didn't have anything at all to go on. Well, not nothing, just nothing that could be proved yet. Gibbs saw the confusion in his agent's eyes and he cursed silently. He had hoped that Tony would be able to tall them something at least.

"Do you remember anything?"

Flashes raced past Tony's vision like cars rushing down a highway. No matter how hard he tried to grasp at the images and remember, they raced past him. He could only pick up words and blurry images; none of it making sense. All he did know was the feeling that he had to keep it secret, though he couldn't think why. He just knew it. Shaking his head in reply only caused the pain behind his eyes to increase. Squeezing them tightly shut, the voices around him floated for a second until he got his focus back.

"You back with us, Tony?" Asked Gibbs, more softly than when he had last spoken.

"Yeah." Tony answered, his voice a little slurred.

"We should let him rest, Jethro." Ducky piped up. Ducky could see that it was a struggle for the younger man to keep awake, he'd rather Anthony be in the hospital but Gibbs had decided against that.

"Fine, help me get him up the stairs in to the guestroom." That was when Tony realised that he was on Gibbs' sofa and his wounds had been bandaged. He wondered a little how he'd made it from the porch, but exhaustion was pulling him into a blissful unawareness and he was safe for the moment so he allowed himself to be pulled down.

Once they had got Tony settled into bed, Gibbs joined Ducky at the table in his kitchen. Taking one look at the look on Jethro's face Ducky started the conversation.

"Something wrong, Jethro."

"Hell Ducky, how are we suppose to learn anything if Tony won't speak to us." Gibbs growled.

"His memory should return soon, just give it some time." Ducky stirred the tea that he had made and passed Gibbs a mug of coffee, he knew it was late but it would at least calm his friend down.

Getting up abruptly Gibbs started pacing. "There's something he isn't telling us, I know it."

Ducky couldn't argue with that, he had seen Tony's confusion but there was something else, it was almost as if he was...scared?

"Perhaps he will tell us when he believes he is safe." Gibbs stopped still, why wouldn't Tony feel safe at his house. Before Gibbs could answer back Ducky held his hands up, waylaying him. "The mind reacts differently when the body has been injured, perhaps he still believes the people will come back, maybe, they threatened that they would hurt those who he cared about."

Gibbs calmed; Ducky did have a point, Tony wouldn't do anything that would hurt the team. Even if it meant he would be hurt in the process.

"Has he said anything to you recently, Ducky?" Gibbs asked, he knew that after his return Tony no longer felt comfortable going to him and had only had Ducky and the director to help while he had been retired.

"No, I'm afraid he's been rather distant as of late, even with Abby." Ducky confirmed Gibbs' fears; Tony didn't seem to trust anyone with anything. "Though, they have all expressed some concerns about him, apparently his mood worsens after seeing the director. Something which has been going on since before you returned."

Gibbs cursed, he knew that the director was up to something, had he been the only one not to notice anything? He thought the team hadn't noticed anything, but now, he was being told they were concerned as well. Had he grown so distant to the team that none of them came to him?

Suddenly there was a large thud coming from upstairs, both men moved swiftly towards the room that held the injured agent. Sounds of struggling could be heard as they reached the door, Gibbs silently ordered Ducky to stay back.

Entering the room, Gibbs saw a dark clad figure struggling with his agent. Raising his gun, he shouted above the two.

"NCIS freeze!" The figured moved unexpectedly and dragged Tony up with his arm round Tony's throat, cutting of his oxygen slightly. Gibbs could clearly read the fear in his agents green eyes. Tony couldn't have fought back if he tried.

"S-shoot.." Tony gasped out faintly. But he couldn't, he'd risk shooting Tony.

"I wouldn't do that if I were you, Agent Gibbs. Drop your weapon and your agent won't be harmed." The figure sneered, tightening his hold on Tony's throat. Tony feebly tried to yank the guys arms from around his throat, to no effect, his strength was failing him and dark spots were appearing in his vision.

Gibbs' gut clenched, he could shoot and risk hitting Tony, or not shoot and not know what was going to happen.

"Who the hell do you work for?" he ordered. He needed some information and he needed it now.

"That, is none of your business Agent Gibbs." Getting pissed at the guy for holding his agent and not getting any information, he squeezed the trigger of his weapon.

Both the figure and Tony went down and the smell of blood filled the air.

Then, silence emanated throughout the room.

TBC

Stay tuned for the next chapter, I will try and not make you wait so long next time.