Ok here it is, Tony Stark vs Samus Aran!! I've decided to pull out all the stops! Tony in his full power with whatever suit is his most powerful idk what suit that is. And Samus with her PED suit, both armed to the teeth, at full power. No holds barred!! I'm gonna be grabbing MREs cause that fight is gonna take a loooooooong time!! But let's look at their strengths/weaknesses:
Tony Stark obviously had the mobility advantage with being able to fly. He's also extremely intelligent. But so is Samus, Samus may have the firepower edge, because all her weapons are energy based. So Tony's Vibranium suit is useless, because Vibranium is able to absorb the inertia from physical objects: bullets, tank shells, etc. not energy based weaponry. So you could also say that in terms of firepower they both are equal, if not Samus or even Tony having the upper hand.
Not to mention Samus having the PED suit, which shoots Phazon. Phazon is a highly mutagenic, volatile, and extremely dangerous substance. And there's very little that protects from it. At least with blue Phazon, as for red Phazon, there's no protection from it, and it is far more dangerous than its blue counterpart. And with that out of the way, I'd probably have to give the fight to Tony, and that's because he has Jarvis, and Friday, and the yellow infinity stone that was lodged in his brain to help him. But feel free to post your theories.
Edit: I learned that Tony's most powerful suit is the Bleeding Edge armor. So he'll be using that. And Samus has her PED suit with the Gravity suit modification
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I'm Pretty sure that's not how her weapons work on Vibranium. Tony. He's made suits to tangle with the Phoenix Force & Thor. I'm sure his Superior Suit/Symbiotic suit is more than enough.