Doubly funny because players might be startled by Ellie's initial attempts at whistling, not realizing it's her and not some monster.
After meeting Bill:
Ellie: We're here because you owe Joel some favors, and you can start by taking these off! (referring to handcuffs dangling from her wrist)
Bill: I owe Joel some favors... is this some kind of joke?
Joel: I'll cut to the chase: I need a car.
Bill: Well, it is a joke. Joel needs a car! Well, if I had one that works, which I sure as hell don't, what makes you think I'd just give it to you? Huh? "Yeah sure, Joel, go ahead, take my car! Take all my food too, while you're at it!"
Bill: The tires are rotten and the batteries are dead.
While Bill and Joel load shotguns in the former's armory, Bill notices Ellie touching a pile of magazines (when he explicitly told her in the beginning of the cutscene not to touch anything), resulting in this exchange.
Bill: Hey! What did I say to you when we walked down the steps?! What did I say?!
Bill:(paraphrased) I told you so, you need to set up more traps and get a better lookout (goes on talking to himself)...
Ellie: Great, now he's talking to himself.
Joel: Er, yeah... Bill?
Bill: ...(still talking) - Joel? This way.
This exchange, after almost getting killed looking for a car that has already been scavenged for parts.
Bill: Somebody had the same idea, they stole my shit.
Joel: Well, then what the hell is Plan B?
Bill: You should be thankful you're still drawing breath! That was Plan A, B, C, all the way to fucking Z!
After leaving Bill's town, Ellie reveals she "borrowed" some things from Bill:
Ellie: I'm sure your "friend" will be missing this tonight. (pulls out gay porn mag) Light on the reading, but it has some good photos.
Joel: Now Ellie, that ain't for kids.
Ellie: Woah! How the — how the hell would you even walk around with that thing?!
Joel: Get rid of that. Just—
Ellie: Hold your horses, I wanna see what the fuss is about. Why are these pages stuck together?
Ellie: (laughs) I'm just fucking with you!
Just the fact one of the things she borrowed is a gay porn magazine, really.
"I really miss coffee."
Ellie reading a joke book filled with the most terrible puns to Joel. He actually groans throughout it.
And then there's one pun that he actually finds pretty funny.
Oh let's not kid ourselves here, most of those puns are gold.
Joel, Ellie, Henry and Sam finding an ice cream truck. When told what it is, Ellie has a hard time believing it.
Ellie: You're totally fucking with me!
Just the fact that Joel describes an ice cream truck as "playing really creepy music" to draw neighborhood kids out.
After seeing Sam and Ellie play darts, Joel can have a throw too. After much build up, he hits the wall.
After solving a puzzle, Ellie demands a high-five for "Teamwork!" and there's actually a button prompt to do it. Take the prompt for the rare and wondrous sight of a man using his whole body to convey an eyeroll.
Joel's exasperation at Ellie's selection of their horse's name:
Joel: What kind of name is Callus, anyway?
The sniper's log at Eastern Colorado University records people being let in and out. The entry for October 31:
10 million werewolves IN. (Let 'em in just for you, Andrea. Happy Halloween!)
When Joel and Ellie are searching the science building for the Fireflies, they keep hearing loud noises. When they finally reach the source, they find that it's merely the monkeys they saw before. Ellie then delivers the golden line in the most deadpan manner possible:
Ellie: Well, maybe in all that research, they turned into fucking monkeys.
"Once we clean up this mess we're gonna have a town meeting and put his leadership up to vote." The civility of the line in context makes it A Rare Sentence gold. While hunting Ellie one of the cannibals says this about David.
When Joel finds Ellie on the operating table with a surgeon attempting to fend off him with a scalpel, it is possible to throw a brick at his face... only that he ignores the brick entirely, even through it breaks apart on his face.
The... "alternate ending" to the game. The director told Marlene's actress to sing her lines in what was originally the game's final cutscene. Troy Baker took it completely in stride and began to sing with her. See here.
There's a bit of dark humor when Tess and Joel confront Robert after Robert tries to kill them both.
When Joel, Tess, and Ellie run past a partially-elevated metal door, closing it just behind Joel as Runners close in on them. Ellie notes to him that he has something on his shoe — the severed left forearm of one of those Runners. Joel simply grunts softly and casually shakes it off.
Ellie finds a toy skull with answers to yes or no questions named Skeleseer. Doesn't take long before she asks "Am I ever getting boobs or what?" Skelseer's answer: "The spirits are quiet". When Skelseer declares Riley to be funnier than Ellie, she responds with "Well, Skeleseer can suck my dick."
Gamers are treated to a new set of puns from Ellie's book. That is, if they can stand them.
The whole arcade sequence where Riley coaches Ellie on how to play one of the arcade. Thing is, said arcade is busted and Ellie is mostly imagining it though Riley's descriptions. Which then include button prompts that you have to press.
Ellie and Riley in the photo booth. "What's a Facebook?"
This troper found it darkly humorous that you can throw bricks and bottles to lure Infected and the Cannibals to clash with each other.
Then there's the infected pulling a Big Damn Heroes moment for Ellie when she's outnumbered by enemies trying to reach Joel. After they've finished them for her, picking them off from the second floor becomes child's play, even on Survivor.
"BRICK. FUCKING. MASTER!"
At one point when scavenging the mall looking for supplies for Joel, Ellie is startled by a cat. A few seconds later the same cat knocks over something when running across some vents, prompting Ellie to yell "Jesus! Are you trying to kill me?"