The last scene mirrors a scene in the pilot where Mulder first opens up to Scully.
Mulder: Where's Gibson?
Reyes: He's with Scully... in good hands.
Doggett: We spent the night talking to him. Gibson knows you're concerned. We're protecting him now.
Mulder: He shouldn't have done what he did - exposing himself like that.
Skinner: Well, the boy was trying to protect you and it looks like it may have worked.
Reyes: He says three judges are wavering. They're leaning in your favor.
Mulder: It's going to take a little more than that, the way things are going. We were never going to win.
Skinner: Take the stand, Mulder. Testify.
Doggett: Then we'll testify, me and Monica.
Reyes: Both of us have seen too much...
Mulder: Listen to me, they'll destroy you. They'll put you out on the street.
Doggett: What's left for us on the X-Files?
Reyes: We came to this job to give it our best. It's the way we're going to leave.
Mulder: It's not about how good you are. They control the game. They own it.
Doggett: Then let's shove it up their ass.
Kersh: Mr Skinner?
Skinner: I'd like to call John Doggett. (Doggett enters the court room) Agent Doggett... you've been on the X-Files for two years. And with all that you've seen, how do you feel about this term 'paranormal'?
Doggett: Well, the way I look at it, calling something paranormal is just a way of avoiding a real explanation.
Skinner: You're a skeptic. But I see here in your own case reports some very detailed descriptions of things that a skeptic would never believe in... these so called 'super soldiers'.
Doggett: Well, that's a whole different deal.
Skinner: In what way?
Doggett: 'Cause I've seen it with my own eyes; shot... drowned... even ground up in a garbage truck. And they just come right back to life.
Skinner: What are they?
Doggett: Well, the best I can figure they're some kind of secret military project - ordinary men made invincible.
Kallenbrunner: Objection. What does this science fiction have to do with anything?
Skinner: Agent Doggett is going to tell you that the man that Mulder is accused of killing is a super soldier. A man that Agent Doggett served with in the marines. Name of Knowle Rohrer.
Kallenbrunner: Objection. Agent Doggett was not present at the murder nor has he seen or examined the victim.
Doggett: That's because I've been getting the bum's rush from the government.
Kersh: Objection sustained.
Skinner: Well, then, let me ask you, Agent Doggett if a super soldier is invincible, how could Mulder have killed this man?
Doggett: He couldn't. The way I understand it, the only way to kill a super soldier is with some rare metal. Agent Scully says it's a form of magnetite from some meteor that fell to earth.
Skinner: And Mulder's not accused of doing that, is he?
Doggett: No, Sir.
Skinner: Your witness.
Kallenbrunner: Agent Doggett... in going over your files, I must say... it's an honor to speak to a man whose record is distinguished by such duty to his country. Now, I'm not going to doubt a man of your integrity, Agent Doggett, even if he tells me a story I find too incredible to believe.
Doggett: Thank you.
Kallenbrunner: Just as you must not doubt the integrity of Fox Mulder on whose behalf you're here to testify.
Kallenbrunner: Even if Mulder believes these so-called super soldiers are aliens? He believes they're aliens, you know. You said you were a skeptic.
Doggett: That's right.
Kallenbrunner: So an alien conspiracy which Mulder has built his defence on must be entirely unbelievable to you, too.
Reyes: My name is Monica Reyes. I've been with the FBI since 1990.
Skinner: Before coming onto the X-Files, Agent Reyes, you worked in the New Orleans field office investigating cases of satanic ritual abuse.
Reyes: I did.
Skinner: Did you ever prosecute any of these satanic cases?
Kallenbrunner: For god's sake, Mr Skinner, we're trying a man for murder not taking a trip down memory lane.
Skinner: I'm showing the court that Agent Reyes is level-headed and objective on strange and extraordinary cases. That her belief in aliens comes from firsthand experience. And she can offer you hard proof that there is an alien conspiracy!
Reyes: I was called on last year, to protect Agent Scully, who was pregnant and whose life was in danger because of her pregnancy.
Kallenbrunner: What does this have to do with aliens?
Reyes: I drove Agent Scully to a secluded location in Georgia where it was believed she could deliver safely. But we soon discovered we weren't alone. I was attacked and had to defend myself against an assailant, who was shot at point-blank range. Who should have died, but didn't. This assailant was then joined by others like him, who surrounded Agent Scully and me, and witnessed her as she gave birth to her son.
Kallenbrunner: Witnessed her? What do you mean?
Reyes: We were confused as well. But we came to understand that her son was a kind of miracle child. His birth was all important to these people; these so-called super soldiers, who I believe are humans replaced by aliens.
Kallenbrunner: Why would Scully's child be important to aliens, Agent Reyes?
Reyes: We came to learn that Scully was one of a number of random women who had miraculous childbirths, and these women all had been abducted as part of a government program to secretly manipulate their biology, operating offshore on a navy ship, using these women as surrogates.
Reyes: For alien babies.
Kallenbrunner: To create a slave race.
Kallenbrunner: A program conducted by the Navy, on a ship which is where?
Reyes: The ship housing this program was exploded on the Baltimore dock.
Kallenbrunner: So, in other words, we have no true evidence past your good word. You claim Scully gave birth to one of these alien babies. How can you be sure of this, Agent Reyes?
Reyes: I saw her child do things that could be explained no other way. I saw him display amazing powers. He'd move objects with his mind.
Kallenbrunner: Really? Do you think we could arrange a demonstration for the court? That we could see that ourselves?
Reyes: No. The child was given up for adoption to an anonymous family.
Kallenbrunner: She gave up the miracle child? The proof of everything that she and Mulder claim that they've risked their lives for over the last nine years - she just sent it off to some strangers?
Reyes: Yes, to protect him!
Kallenbrunner: Thank you, Agent Reyes. That's all.
Reyes: You don't care about that child or what Scully had to sacrifice. You're only too happy she had to give it up so there's no proof.
Kersh: Agent Reyes.
Reyes: You don't care what these people have sacrificed over the last nine years - what's been lost to their cause. You make a mockery of it, gladdened it proves your point.
Kersh: Agent Reyes, that's enough!
Reyes: What is the point of all of this? To destroy a man who seeks the truth or to destroy the truth so no man can seek it? Either way, you lose.
Kersh: Mr. Skinner. Please call your next witness. (Scully enters the court room holding a report)
Scully: Assistant Director... (to Mulder) I found it.
Scully: What's going to get you off.
Skinner: I want to move to dismiss again based on new evidence I just received that there is no victim. That the body of Knowle Rohrer is not Knowle Rohrer, but that of a man who died of a broken neck and whose body was burned post-mortem.
Kersh: Motion denied.
Scully: You can't deny it.
Kersh: You're out of order and in contempt of court, Agent Scully.
Scully: You're in contempt. I have evidence proving that Agent Mulder is innocent.
Kersh: You have no authorization to examine the body, Agent Scully. Have her removed from the courtroom.
Mulder: If she's got evidence, you got to listen.
Kersh: Order! Remove the defendant from the courtroom. This trial is adjourned.
Kersh: Gentlemen... we have a verdict. If you'd rise. Acting fairly and impartially, this panel finds the defendant... guilty of first degree murder under aggravated circumstances. Is there anything you'd like to say on your behalf, Mr. Mulder... before we decide your sentence?
Mulder: Yes. I'd like to congratulate you, on succeeding where so many before you have failed. A bullet between the eyes would have been preferable to this charade. But I've learned to pretend over the past nine years - to pretend that my victories mattered only to realize that no one was keeping score. To realize that liars do not fear the truth if there are enough liars. That the devil is just one man with a plan, but evil, true evil, is a collaboration of men, which is what we have here today. If I am a guilty man, my crime is in daring to believe; that the truth will out and that no one lie can live forever. I believe it still. Much as you try to bury it, the truth is out there. Greater than your lies, the truth wants to be known. You will know it. It'll come to you, as it's come to me, faster than the speed of light. You may believe yourselves rid of your headache now, and maybe you are... but you've only done it by cutting off your own heads.
Doggett: (answering phone) Yeah... I'll tell her. (He hangs up)
Scully: Who was it?
Scully: Agent Doggett?
Doggett: Death by lethal injection.
Gibson Praise: You can't hide me forever.
Reyes: We can destroy your files - make it next to impossible to find you.
Gibson Praise: You don't know these people.
Doggett: I'm going to protect you, Gibson.
Doggett: What the hell is this? What the hell's going on? (The X-Files office has been stripped bare of all the filing cabinets, desks and other office furniture) They can't do this. Who authorized this?
Reyes: I'm going to find out.
Skinner: (answering phone) Skinner.
Reyes: They've packed up the X-Files.
Skinner: I know. It's out of control. I'm trying to get to the bottom of it. I'm trying to get to Kersh.
(Mulder is relieving himself by the side of the road)
Frohike: Hey, hot shot! You might have the common courtesy of doing your business there downwind.
Mulder: Oh, boy.
Langly: Why don't you just finish draining the little lizard and then we'll talk?
Byers: We're very worried about you.
Frohike: It's craziness, man. Turn around.
Langly: Just hang a big U-ie and never look back.
Mulder: I can't.
Byers: Why risk perfect happiness, Mulder? Why risk your lives?
Mulder: Because I need to know the truth.
Byers: You already know the truth.
Mulder: I need to know if I can change it.
Langly: Change it?
Frohike: For crying out loud. All you're going to do is get yourself killed.
Scully: Mulder! What are you doing?
Mulder: I'll be right with you, Scully.
CSM: What's the matter, Agent Mulder? You come to see the wise man, but you look as if you've seen a ghost.
Mulder: You're no wise man. You're a dead man. Just like Krycek and X.
CSM: You see a dead man, Agent Scully?
Scully: I hoped and prayed you were dead, you chain-smoking, son of a bitch.
CSM: You waste your time. Ask Mulder. He knows the futility of hopes and prayers. He knows the truth now. You have told her the truth, haven't you, Fox? I helped you find it.
Mulder: You didn't help me. You sent me to that government facility knowing exactly what I'd find.
CSM: And now you refuse to speak it. Not to Scully, not to anyone. You've even refused to testify what you learned... even though it would have saved your life. You damned me for my secrets... but you're afraid to speak the truth.
Mulder: You call me afraid? Look at you sitting here alone in the dark like a fossil.
CSM: It's the final refuge. The last place to hide from those who are insidiously taking power now.
CSM: The aliens. They fear this place... its geology. Magnetite. Like that which brought down the original UFO in Roswell. Indian wise men realized this over 2,000 years ago. They hid here and watched their own culture die. The original shadow government.
CSM: It leaves me to tell you what Mulder's afraid to, Agent Scully.
Mulder: Come on, let's go.
CSM: It's a scary story. You want to come sit on my lap?
Scully: You don't scare me.
CSM: My story's scared every president since Truman in '47.
Mulder: You don't have to hear this.
Scully: No, I want to hear it, Mulder.
CSM: Ten centuries ago the Mayans were so afraid that their calendar stopped on the exact date that my story begins. December 22, the year 2012. The date of the final alien invasion. Mulder can confirm the date. He saw it at Mount Weather... where our own "Secret Government" will be hiding when it all comes down.
Mulder: Yeah, you smile... feeling drunk with power. The power to do nothing.
CSM: My power comes from telling you. Seeing your powerlessness hearing it. They wanted to kill you, Fox. I protected you all these years... waiting for this moment... to see you broken. Afraid. Now you can die.
Doggett: Run, Monica. Get out of here.
Doggett: Knowle Rohrer. That's far enough.
Knowle Rohrer: Shoot me, Agent Doggett, if you think it'll make a difference this time.
(Doggett fires, the bullet hits Knowle Rohrer in the chest, but he continues to advance on Doggett and Reyes. They are forced back, when Knowle Rohrer stops advancing and struggles to move forward. He starts to spasm and metallic oxidation appears on his skin. The oxidisation covers him, then he is sucked into the rocks at high speed)
Mulder: Agent Doggett!
Doggett: Mulder, get out of there!
Reyes: They know where you are!
Scully: You've always said that you want to believe. But believe in what Mulder? If this is the truth that you've been looking for then what is left to believe in?
Mulder: I want to believe that the dead are not lost to us. That they speak to us as part of something greater than us - greater than any alien force. And if you and I are powerless now, I want to believe that if we listen to what's speaking, it can give us the power to save ourselves.
Scully: Then we believe the same thing.
(Mulder climbs onto the bed so that they are holding each other)
Mulder: (whispers) Maybe there's hope.
"The Truth" featured the largest number of cast members in the opening credits than any other episode: David Duchovny (Fox Mulder), Gillian Anderson (Dana Scully), Robert Patrick (John Doggett), Annabeth Gish (Monica Reyes), and Mitch Pileggi (Walter Skinner), bringing the total to 5.
The day in which the aliens will come and take over the world is set on December 22, 2012, the day in which the ancient Mayan calendar ends (the end of the world) is either December 21, 2012 or December 23, 2012.
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