Okay, I don't think you people are giving Kratos enough credit.
First of all, I'm not saying Kratos would win, but it would in no way be a stomp. Here's why.
As a God of War fan, one thing I've noticed about the gods and their powers is that they are inconsistant to the point where it's impossible to accuratly tell were they rank on a power scale. High end of the spectrum is low level skyfather (See Ares in God of War 1) to mid level meta (Zeus in God of War 3). It was also implied in the God of War comics that Gaia was a cosmic level being when the Chaos Giant said she and Uranus gave rise to the universe and all creation. Obviously she's mostly just a earth giant with mid level mage powers in her usual showings. But all that aside, take into account that Kratos basically destroyed all of them without alot of resistance.
Long story short, Thor's had trouble with guys that Kratos would eat alive. Kratos is sort of a cross between Ghost Rider, Wolverine, and the Hulk. He'd give Thor some trouble. But at the end of the day, yeah. Godblast.