Honestly though Naruto expresses many of the same qualities as Goku. That being said they both fall squarely into the martial-arts-anime-primary-protaginost realm ie dedication to increasing strength, dedication to friends so it makes sense to compare the two.
So because of this I feel it would not be ass straight forward as the joke implies. As we've seen before Goku loves a fight and would most likely sense Naruto's innate power and would first goad out his ultimate potential.
They would also recognize themselves in eachother, which by the anime laws would foster some sort of comradery in battle leading to both want to fight eachother at max all-you-got level.
I would hypothesize that after a pitched battle Goku would still end victorious though due to the simple fact he is a saiyan therefore having no limit.
Ultimately they would end the fight as friends, with Goku asking Naruto to train him to use sexy shadow clone juistu.