The bills in Casey's locker all say FOR MOTION PICTURE USE ONLY and have the serial number G3 00005967 T on them. This is an obscure in-joke to Heroes, where Niki Sanders stole $2 million from Lindeman. Each of the bills she stole said FOR MOTION PICTURE USE ONLY and had the same serial number as seen here.

The exterior of the building that they went up into from the subway, was the building that was used as FBI Los Angeles headquarters in FlashForward.

Steve Bartowski: Son, your brain is working fine so far, right? Who wouldn't be paranoid in your shoes? Your cover's blown, your secret base discovered, your dead partner and girlfriend's ex-lover was a double agent.
Chuck: Way to talk me down, Dad.

Jeff: It's like my dream come true. Ellis is exactly like Chuck, but with lady parts.

Chuck: General, what the hell is going on?
General Beckman: I don't know how else to explain it, Chuck, but all our ass... careers are on the line.

Ellie: Chuck, our Chuck, punched a CIA agent in the face today and they are holding him right now!
Awesome: You mean you haven't been cheating on me?
Ellie: What? Devon, what are you talking about? No. Listen to me. I think he's going to need a lawyer.
Devon: No, no. Chuck has been with the CIA for years! I am so glad you finally know. What a relief it is to talk. You don't know. Oh, no. I just told you.

Steve Bartowski: If you stay, everyone you love will be in danger. You have to choose who you want to protect: you or her.
Chuck: Dad, please don't leave...
Steve Bartowski: Right now, Charles! You have to run to protect her!
Chuck: I'm sorry, Sarah. I'm sorry, but if I have to choose, I will always choose to protect you. (kisses her)

Devon: The whole generalissimo thing--I was undercover on a mission. That's it, that's all I know, babe. Oh, and you can blame the CIA for my bachelor party. Stripper--she was an agent. Told you I didn't cheat. Faithful.
Ellie: I can't believe that my brother and Sarah are spies. How is my dad involved in all of this?
Devon: I, uh, have pockets of missing knowledge. I didn't want to know because I didn't want to have to lie to you, babe.
Ellie: Devon, an actual, legitimate answer exists as to why my father as been missing my entire life and you didn't think to ask that question?
Devon: Correct.
Ellie: You need to find me somebody who knows a lot more than you do. Right now. (takes her to Morgan) Morgan Grimes, the boy that took my pillow as his date to Junior Prom knows more about my family being spies than I do.

Ellie: All I know is that Justin told me that John Casey is a double agent and he's here trying to gather information about my dad. But if Chuck is an agent too then maybe Casey lied to him and turned him somehow?
Morgan: Our Eagle Scout, Chuck? Turned? To the dark side? No. Not gonna happen. And any suggestions that Colonel Jonathan Casey's character's in question, well I would stake my entire, albeit okay, thin, reputation on the fact that he is Uncle Sam's most faithful servant.

Ellie: I need to hear you say it. I need to know that there's a reason that you left us.
Steve Bartowski: It's a long story. I want to tell everything but I've got to take care of this first, okay? (hugs her) This is the last time I'm going to walk away from you. I promise. I love you, baby.

Casey: Don't know when it happened, but our boy became a man. Bartowski's a spy. Picked a good one, Walker. Finally.

Alex: I don't know what's going on. All I know is that this customer, John, kidnaps me and then he tells me that he's my father and now there's men chasing us and I'm sorry I know that I don't really know you, I'm just a little confused right now.
Morgan: No, no, it's okay, I'm sorry, I didn't mean to make you upset. Look, Miss, I promise you this, if John Casey says he's your father, then it's the truth. I trust that man with my life. You have nothing to be afraid of, not if he's your father. And in fact, this store is as safe as anywhere... provided you stay away from those two. (indicates Lester and Jeff)