Trivia: After Storm Shadow kills the last ninja guarding Zartan, Zartan knocks over a bunch of crates. Right after he does this, pay attention to the wall behind Zartan: you can see the logo there of the Umbrella Corporation, from the Resident Evil series. (01:42:25)
Trivia: The subterranean prison's name is "Einsargen." "Jemanden einsargen" is a colloquial German description for "to coffin someone", normally meaning to kill someone.
Trivia: After the Joes retrieve the nuke, they have a site setup in the desert getting ready for "extraction." Flint calls Mouse "Tiny Tim." Joseph Mazello who plays Mouse was also in Jurassic Park, in which his name was Tim. (00:12:15)
Trivia: During the raid on the summit, a team of soldiers runs past Lady Jaye. One of them can be heard shouting "Follow that ground team!" This quote is directly lifted from Transformers: Dark of the Moon when the soldiers in that movie are about to attack the Decepticons. It is definitely Josh Duhamel's voice, indicating Paramount reused this piece of audio.
Chosen answer: I believe three are named as Grunt, Clutch and Tunnel Rat in the script and credits.