A couple of fellow zBrush adventurers have recently posted some great info in the comments. Bytedreams Slade points us to this video that explains the new texturing options  in zBrush 3.5r3. Yay for multiple textures! This looks pretty tasty. Might be enough to get me to update. :)

Vivienne Daguerre recommends this tutorial by CannedMushrooms that shows how to Material Bake a complex zBrush object. She also shares her method for backing textures in zBrush 3.5r3.