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I have to go with the Flash on this one. Against the Hulk the Flash is useless. However, against Bruce Banner the Flash will win. Flash can get the hell out of Hulk's way until Hulk calms down and then take advantage of the situation and beat up Bruce Banner who is the Hulk.
All he has to do is avoid the Hulk at all costs and this battle is his. Hulk will get bored eventally. This is a fact, which I believe is Hulk's downfall.
I'm boing to be blunt. Flash could destroy Hulk very, very quickly simply by using his speed. Not because he could run around dosging until Hulk turned back into nice punchable Bruce Banner, but because physics can be really screwed up when you go as fast as The Flash does.
Let me show you two scenarios. In the first, Flash picks up a stone from the ground. For ease of maths, it weighs one kilogram. He runs off around the world and when he comes back around he throws the stone at 99% of the speed of light (296,794,533 m/s). At this speed it weighs 10 kilos and has a momentum of 2,967,945,330 kgm/s. Newton's first law tells us that rock ain't going to stop when it hits Hulk (see also, high velocity bullets with less than a percent of that speed going straight through the pople in its path). Thus two things will happen, the rock will fly straight through him and he will be sent flying, freeing up Flash to keep doing that again and again until Hulk is little more than a pile of radioactive goo.
But that's completely irrelevent. Flash could win this fight without even touching Hulk. This is because Mass isn't the only thing that changes when you go fast. When you approach lightspeed, time dilates. When traveling at 99% of light speed, a minute to the Flash seems like 7 to The Hulk, and that figure only increases when Flash goes faster. If Flash traveled at one meter per second slower than light, a minute to him would be 8.6 DAYS to Hulk. An hour, 1.4 years. Flash can keep up his speed all day as he's sustained by the speed force can Hulk?. And as Flash can also travel at Lightspeed, he can make that minute last a lifetime or stop it entirely.
Face facts Hulk fans, Flash wins.
I don't think you can use the laws of physics when the examples you are giving deny those very same principles. If you run close to the speed of light you will literally run off the face of the Earth because the surface is curved. So observing these laws, Flash either burns to death going through the atmosphere or dies of asphyxiation once he hits space were his legs can go as fast as they want but without atmosphere, he goes nowhere.
And as for running at the speed of life until the Hulk dies, you realise that with his regenerative powers Hulk will outlast the rest of mankind. In Marvel mythology, he only finally dies because he reverts to Banner (who has died millennia before him). Even if he did employ this (frankly cowardly) tactic and it worked, he'd be the only one alive to celebrate.
I take it you have heard of gravity. Makes is quite difficult to simply run off the face of the earth. And since Flash can run faster than light, obviously the Speed force protects him from the effects that traveling at that speed would do. It also sustains him so he can literally run forever.
Luckily, this isn't a fight of honour.
Also, Flash can run so fast he travels backwards in time. Hypothetically he could travel back and prevent Banner from getting turned into the Hulk. Or stall him to death and then travel back in time to face his next opponent. Whatever way you look at it, it's game over for Hulk.
I'm speaking from the perspective of one who hasn't read the comics but watched the DCAU (DC Animated Universe). I don't think anyone can argue against that if it was a straight up fist fight, Hulk would destroy Flash in a heartbeat. However, taking Flash's speed into account, I do believe Flash can overcome Hulk. In the Justice League Unlimited episode "Divided We Fall", Flash was able to overcome the fusion of Lex Luthor and Braniac. The Luthor/Braniac fusion easily overcame the entire League, including Superman and Martian Manhunter, on his own which leads me to believe that he is very capable of single handedly defeating Hulk. Flash could defeat Hulk the same way he single handedly defeated the Luthor/Braniac fusion: by running several laps around the world (which he could easily do) until he reaches a state of Speed Force and continuously smash into Hulk, gaining more and more momentum each time he makes a full lap. Hey, if it worked against a demi-god like Luthor/Braniac, I think it could work against Hulk... right?
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