Well, he beat the crap out of Buu without breaking a sweat. But then, Buu wasn't really backing down, either. And Goku had trouble with Kid Buu, who statistically would've been at most 60% to 70% of Fat Majin Buu's power level (just a more savage fighter who only wanted blood, not fun).
However, given that SSJ2 Majin Vegeta did so much damage, SSJ3 Goku could've done more. I think it would basically come down to who stopped screwing around first in a real fight between SSJ3 Goku and Fat Majin Buu.
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