THINKER: I...I don't want you to know my real name. I... I just don't think it's that important that you know.
MULDER: Sounds like a line I used in a bar once.
THINKER: Look, I'm sorry about the wait but I kinda got this ninja party shaking my butt.
MULDER: Why? What've you got?
THINKER: Well, if I'm correct, I got the original defense department's UFO intelligence files. Everything from the 1940's and up.
MULDER: Everything?
THINKER: Everything. Roswell, MJ12 and beyond.
MULDER: You've read them?
THINKER: Not entirely. I downloaded all I could and then I split. I mean, I knew that these guys would be after me.
MULDER: What makes you think they know who you are?
THINKER: I didn't take any precautions. I mean I... I didn't even expect to get inside.
MULDER: You know they always denied that these files even existed. What do you want from me?
THINKER: I want the truth. And I want you to promise that those rat bastards answer to the people.
MULDER: Are you familiar with the Ten Commandments, Scully?
SCULLY: You want me to recite them?
MULDER: Just number four, the one about obeying the Sabbath. The part where God made heaven and earth but didn't bother to tell anybody about his side projects?
SCULLY: What are you talking about?
MULDER: The biggest lie of all. (Mulder's computer screen says "Department Of Defense. Top Secret.")
SCULLY: What is this?
MULDER: The Holy Grail. The original defense department files. Hard evidence that the government has known about the existance of extraterrestrials for over fifty years.
SCULLY: Where did you get this?
MULDER: Your friendly neighborhood anarchist. (the screen shows a strange code) I don't believe this. This is just gibberish. Damn it. I'm so sick of this crap, BS and double talk. I can't believe this.
SCULLY: Mulder, this may not be gibberish.
MULDER: It's a joke Scully, it's a bad joke.
SCULLY: I think it's just encrypted and I think I recognize it. It looks like Navajo. It was used in World War 2. My father told me it was the only code the Japanese couldn't break, I... I remember the long strings of consonants.
MULDER: Well can you find out?
SCULLY: Well only a handful of people can decipher it.
MULDER: Then find one of 'em.
Bill Mulder: No one was supposed to know.
Cancer Man: Who could have predicted the future Bill? That the computers that you and I only dreamed of, would someday be home appliances capable of the most technical espionage.
Bill Mulder: The files should have been destroyed.
Cancer Man: They should have, but they weren't. Regret is an inevitable consequence of life.
Bill Mulder: How do you know my son has them?
Cancer Man: The man who stole them has come forward.
Bill Mulder: Oh God.
Cancer Man: As always, we maintain plausible denial. The files are only as real as their possible authentication.
Bill Mulder: My name is in those files.
Cancer Man: The files have been encrypted, of course. We have a certain luxury of time. We endeavoured to prevent that fact from ever coming to light.
Bill Mulder: You wouldn't... harm him?
Cancer Man: I've protected him this long, haven't I? Your son has been provident in the alliances that he's created. The last thing we need is a martyr in a crusade.
Bill Mulder: But if he should, learn of my involvement...
Cancer Man: You're your own man Bill. You always have been. But I strongly encourage you in that event, to deny everything. It's good to see you again Bill. You look well.
Scully: Can you tell me which words you do recognize?
Navajo Woman: This word, it means goods, merchandise. And this one means vaccination. They're both modern words which is why they stand out.
Bill Mulder: It's... it's so clear now. Simple. It was so complicated then. The, the choices that needed to be made.
Mulder: What choices? Dad...
Bill Mulder: You're a smart boy Fox. You're smarter than I ever was.
Mulder: About what?
Bill Mulder: Your politics are yours, you've never thrown in. The minute you do that, their doctrines become yours and you can be held responsible.
Mulder: You're talking about your work in the state department.
Bill Mulder: You're going to learn of things... Fox, you're going to hear the words and they'll come to make sense to you.
Mulder: What words?
Bill Mulder: The merchandise. Look I, I've been taking some medication. You'll have to excuse me for a moment.
(MULDER'S father leaves and goes into the bathroom, opening the medicine cabinet. KRYCEK'S reflection is show in the mirror, he is standing behind the shower curtain. A gunshot is heard, MULDER runs in)
Mulder: Dad? Dad. Dad.. Oh, Dad...
Bill Mulder: (before he dies) Forgive me...
Mulder: You took my gun. You think I did it, don't you?
Scully: I took your gun to run it through ballistics to try and clear you, Mulder.
Mulder: Well, why didn't you ask me?
Scully: You had a temperature of 102 last night, I didn't want to wake you.
Mulder: What, were you afraid that I was going to shoot you too?
Scully: Mulder, I'm being called into Skinner's office this afternoon, they're going to want answers, and I'd like some good ones to give them.
Mulder: (angry) So you can clear your conscience and your name? You've been making reports on me since the beginning Scully, taking your little notes!
Scully: Mulder, you're sick, you're not thinking straight, I'm on your side. You know that.
Mulder: Look, you have my files and you have my gun. Don't ask me for my trust.
Mulder: You shot me!
Scully: Yes, I did. You didn't give me much choice. You were about to kill Krycek.
Mulder: Why'd you shoot me? He's the one...
Scully: If he is, then his weapon is probably the same one that killed your father.
Mulder: What are you talking about?
Scully: If you killed Krycek with that weapon there would have been no way to prove that you didn't kill your father. I'm sorry about your father, Mulder, I haven't been able to tell you.
Scully: I was certain they would have killed you, Mulder.
Mulder: Thank you. Thank you for taking care of me.
Scully: There's something else. My name is in those files. It appears in the latest entries with Duane Barry's.
Mulder: In what context?
Scully: It's not clear, but it has something to do with a test. I want you to find out, Mulder. I need you to.
Mulder: (answering phone) Mulder.
Cancer Man: You're a hard man to reach.
Mulder: Not hard enough, apparently.
Cancer Man: Where are you?
Mulder: I'm at the Betty Ford Center, where are you?
Cancer Man: I need to talk to you, Mr. Mulder, in person. There are some things to explain.
Mulder: I'll save the government the plane fare, I just need to know which government that is.
Cancer Man: Your father may have told you things, Mr. Mulder. I should warn against taking those things at face value.
Mulder: Yeah, which things are those?
Cancer Man: He was never an opponent of the project. In fact, he authorized it. That's what he couldn't live with.
Mulder: No, he couldn't live with it because you had him killed.
Cancer Man: We weren't involved in that.
Mulder: Now listen to me, you black-lunged son of a bitch, I'm gonna expose you and your project, your time is over.
Cancer Man: Expose anything and you only expose your father
Mulder: (on the phone with SCULLY) I'm in a boxcar buried inside a quarry. There are bodies everywhere.
Scully: Bodies?
Mulder: Stacked floor to ceiling.
Scully: What happened to them?
Mulder: I don't know.
Scully: Mulder, in these files I found references to experiments that were conducted here in the US by Axis Power scientists who were given amnesty after the war.
Mulder: What kind of experiments?
Scully: Some kind of tests, on humans. What they referred to as merchandise.
Mulder: But these aren't human, Scully. From the look of it I'd say they were alien.
Scully: Are you sure?
Mulder: I'm pretty damn sure. Wait a sec... This one... has a smallpox vaccination scar.
Scully: Mulder.
Mulder: Oh, my God, Scully, what have they done?
Cancer Man: (in the boxcar) Where's Mulder? He's here!
Black Opps Man: No sir, if he was, he's vanished without a trace.
Cancer Man: Nothing vanishes without a trace. Burn it!