Pretty much. Youtube have an inbuilt content check system, where some items get flagged super quick for holding content that is held by certain parties (I have a MGS 2 video that got flagged for containing video content from the game, so it hit really accurately and thus I couldn't monetize it), others took months and those were only for music bits (Thanks Kanye) and some just not at all.
There was a massive spread of takedown notices and whatever last year I believe when Youtube updated their system with Nintendo stuff and Lets Players were pissed. I would have been pissed too, not so much on a money standpoint, but because it's legit original content in the form of an extended review or some such stuff. It's not like I'm playing a game and uploading my playthrough without context or additional content. Anyway, Nintendo now have a partnership system so if Lets Players want to continue monetizing Nintendo content in Lets Play videos, Uncle Mario must get a cut.
If devs want more money out of these videos, they can pretty much just register their content with Youtube and upon getting flagged, any ads that run concurrently with videos with their content, they get the money or as I understand it anyway.
Where Phil Fish is coming from is straight outright douchebaggery, because Phil Fish is in fact a douchebag. Straight up fact.
Phil is the type of dude who when getting criticized (or outright blasted) on Twitter, urged one of his detractors to (and I quote) "compare [his] life to mine and then kill yourself". Yep. Phil also burned all his bridges with a ton of people because in during an argument with a games journo he announced that the sequel to his game Fez was cancelled and that he was leaving the gaming industry. Philippe can go f*ck himself, but I doubt he'd read my comment on a random wrestling forum. :lol