I'm okay with the protag acting in a way I wouldn't if the protag is well defined as a character and consistent, and stuff that "could go either way" isn't patently opposite of what I want him to do.
Like Lloyd Irving being naive and stupid is cool with me because he's got strong characterization throughout the game.
But a guy like Crono who's all but a blank slate, or even a guy with more but still not that much like Bartz from FFV? Yeah it's annoying. And of course if a character does something that I not only dislike but also comes off as totally inconsistent like Squall from FFVIII that's even worse.
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No problem!
This is a cute and pop genocide of love!