Just gonna copy/paste
Idk if scaling Intelligence is allowed, actually. They're superior to him in skill, but while they do manage to fool him at times (actually, do they?), it's via situational advantages, kinda like how Light Yagami manages to beat L despite being canonically a little less smart than him, or how literally everyone important in Danganronpa doesn't have Extraordinary Genius by managing to beat Junko intellectually. Or how Joseph Joestar doesn't have Extraordinary Genius for... you get the point
Also, I'm pretty sure Ocelot's slipped back into his real personality by the final phase of the MGS4 final boss, and Snake does still outmatch him- though you could argue that by then they're just two tired old men slugging at each other by then. I don't think Big Boss easily overpowering Snake in CQC at the ending counts as an anti-feat though- Snake was emotionally destroyed, shocked, and probably a fair bit weaker physically.
Also, looking at the other message thread below this, do we know Raiden's more skilled than Sam? After all, his stats are so much higher than Sam's that he could have realistically won even if less skilled, and in fact the cutscene in which he lands the killing blow has him just overpower Sam in a blade struggle, then stab him iirc.