User blog comment:Gekkou30/Solid Snake vs The Joker/@comment-1971498-20131201175244

One of the most interesting dynamic between Batman and Joker's role as protagonist-vs-antagonist is the fact that Batman has qualms against killing his foes. Solid Snake does not, he's a hired gun, and he definitely has no qualms with killing his target. That alone destroys any potential huge-scale threat from the Joker when you consider how people like Volgin, Liquid, Solidus, and Ocelot are far better equipped, trained in military warfare, and in high positions of power to be able to conduct and finance the things they've caused. While the Joker is a great character and is definitely more twisted than any of those MGS characters, I don't think he stands a fair chance against someone like Snake, especially since context-wise in terms of how MGS plots are conducted, it just wouldn't work favorably for Joker.

Now if you put Solid Snake up against Batman, THAT I'd have a harder time calling which one would probably win.