I've never really done any rigging or animating when it comes to UDK So I have no idea how to go about this, I have this UV based eye rig sitting in Blender, The bone doesn't control any geometry, just UV coordinates. I think it's possible to control UVs through the material editor (can someone confirm) but how do I go…
You actually already have split them. Simply add a float2 to the texture coordinates. The R-value of the float2 controls the U-offset, while the G-value controls the V-offset. I'm not aware of any method of getting rigging information into the material editor though.