In comparison with the images you provided, there shouldn't be any reason, under the same set of conditions, that one set of textures works and the other doesn't.  There are a good number of users that are shying away from EZSkin and conforming to using the PhysicalSurface node or Cycles node for Superfly rendering.  Snarly is considering revamping EZSkin to use the current Superfly alternatives, I'd be willing to test run the prototypes. 

Ghostship has created Superfly-specific eye shaders for V4 and, IIRC, you should find them in the free section.