Episode 1

"Take me with you or else I will make your pingas BURN!" Particularly because this line is said by Snake.
"The Triforce of Wisdom is WRONG!"

Episode 2

Act 2

Dr. Robotnik reveals his latest scheme to Scratch and Grounder:
Robotnik: My boiz! This could well be the culmination of my unbelievably evil and brilliant career!! I have suck-seeded in building the most inescapable prison evah! Equipped with a foolproof lure system! Every detail is so perfect! I have modestly named it after myself! I call it... Robotnik's Beautiful Love Resort!
Then when he reveals that Tomo is the new head of the SSSS Squad:
Scratch: Tomo's your secret agent?
Grounder: BEAVERS!

Act 1

The argument between Link and Gwonam at the beginning of Act 1, eventually leading to:
Gwonam: Fumigation prevents my approach to my house. It makes me die. Got any food?
Link: No.
Gwonam: Link is evil. *throws a fireball at Link*
The Ham-to-Ham Combat between Captain Falcon and Black Shadow (Shinenzuman).
Captain Falcon: Black Shadow! YOU SUCK!
- Followed by the King flying into the battle and getting caught in the crossfire, and then surviving a portion of the galaxy being destroyed.
The King realizes that he forgot to make Black Shadow eat his shit:
King: I suck.
Snake: What do you mean?
King: I forgot to make him eat my shit.
Snake: Dammit! Don't regret your past- learn from it! Regrets just make a person weaker.
King: What do you think about my shit?
Snake: I don't know if I'd ever order one in a restaurant, but...

Act 1

In Act 1, the King attempts a Badass Boast. Key word being "attempts".
Otacon: It's not like you to whine, King.