I believe that is how it's supposed to look, considering there have been several changes in the lighting system with renewed. My theory is that the stained glass is making the inside appear darker with its colored shadow (along with the actual structure), because even white stained glass is still stained glass, and is not supposed to let in more light than normal glass.
If this really is intentional that would be unfortunate... aside from that, bloom when holding a lightly colored item or glowing object is VERY high and darkens the remainder of the screen. I can't seem to change this with any of the shader's settings as it stands.
Even with these flaws it's extraordinarily beautiful—the water especially. I'm torn between using this and Sildur's, but I'm enjoying SEUS a heck of a lot at the moment.