The Running Gag in episode 14 of not having enough space to hold items.
Zero tells us a story about how, as a kid, he had Crystal for his Gameboy and would play it when he went to visit relatives, then turn it off and leave it on the table until leaving. Four times in a row, he found out only after getting back home that one of his cousins stole Crystal from his Gameboy. He went through four copies of the game before he said "screw it" and just played Pokemon Gold instead of getting new copies of Crystal.
The Call Back to his Pokemon RedLet's Play: upon meeting Professor Oak, he again accuses him of running a black market for Pokemon.
He comes across a trainer that has three Caterpie and one Weedle, and correctlypredicts that the Weedle will use Poison Sting and poison him instantly.
In Sprout Tower...
Sagenote the trainer type found throughout Sprout Tower: The elder's HM lights even pitch-black darkness.
And then after stabbing the guard in the face, he yells at Jason to take the knife. Jason doesn't, so Zero just nonchalantly says "Okay, back to running."
He goes and starts heading up a mountain to an objective...only to then discover that he's going out of the area bounds, because he didn't talk to an NPC to make the objective available. So he has to go all the way back down so he can go all the way back up.
Minecraft: The Walls
During Minecraft: The Walls, RLYoshi starts the first part out with an introduction, then waits for Zero or Bridgett to introduce themselves, not realizing they're waiting for him to introduce them. This leads to an awkward silence and some Played for Laughs irritation on Zero's part.
Later, Yoshi spends most of his time setting up a TNT trap near the entrance of their base and constantly warning the other two not to step on the pressure plate, only to nearly set it off himself.
While Yoshi and Bridgett are outside during most of the setup in part one, Zero just sticks around in their base, mining, crafting, and cooking, not even really reacting to what's going on. There's just something funny about seeing him casually work while Yoshi and Bridgett nearly push each other off the edge of the map.
RLYoshi: And now, you see, the idea here is they'll think [the trap] is so obvious, they'll just probably toss something onto it and back up...so what I do is I back up, and I plant one [TNT] underground right here! And lead some redstone to it...
Bridgett: (laughing) I like how you're acting as though you're really sneaky.
Also the group's surprise when Zero hands them diamond swords. And Bridgett's remark at the sword being enchanted with Bane of Anthropods (deals extra damage to spiders).
While Zero is using a bow and arrow to snipe from a tower and Yoshi is off fighting with a sword, Bridgett is still underground, mining and casually commenting when he finds stuff like coal. Naturally, he lampshades this.
Bridgett: I'm just gonna come up at the end while everyone's dead and be like, "Let's do it!"
The TNT shenanigans. That is all.
When Zero and Fury start setting up for their two-on-two against Yoshi and John, Fury decides to imitate Game Chap while Zero just watches.
Zero and Yoshi get into a sniping war, with Zero bragging about his sniping skills. Watch both sides and you'll see that neither of them ever hit each other except for when Zero got much closer and scored a fatal shot.
The greatest example is when Zero is walking along...and suddenly gets taken by surprise and killed by Fury, just before Fury leaves and gives Yoshi a second life. And watching from Yoshi's side shows Fury doing this almost casually.
And after Yoshi gets his second life, he gets killed by Frank almost instantly. Watching from his side reveals that this was because he wasted precious seconds attempting to fire a bow, not realizing he had no arrows.
The Walls 2
Yoshi and Zero have no idea what this map has in store for them, so naturally their panic is a series of funny moments.
After the walls fall, Yoshi starts burning down all the trees in an attempt to flush out Fury and John.
When Yoshi wins the round after killing Zero, Fury types it out incorrectly, saying that the latter killed the former instead.
Super Mario World Romhacks
"So many coins. What is this, New Super Mario Bros. 2?"
You can tell right from the beginning that the series will not end well, when Yoshi states that he has the most Tekkit knowledge of the three of them.
The Running Gag of Yoshi - and Zero, a bit - referring to an energy condensor as a compressor due to forgetting the name.
Zero gets killed by a Creeper due to lag not registering his hits. His reaction is priceless.