@bryanfsmith Well, you're making it very difficult to get this look when your glass has no transparency. What I did what on your stained glass material, you can turn off Color and turn ON Transparency. Put your glass texture in this channel.
The next major thing to change is the Shadow for your light. Set it to Raytraced (Hard). This will prevent the big light spot on the floor. For some reason, C4D has always had a bug if you use the Raytraced (Soft) setting. Light will always leak along the floor.
One last thing. You have three spot lights to make sure to cover the entire shape. Since you're most likely mimicking sunlight, change your ONE light to Parallel Spot. This will cover the entire shape and give you straight light streaks, like the real sun.
The only thing I don't like about this test, is the intensity of the color on the floor. When the light streaks are nice and bright, the image on the floor is very bright. But that's just me. Good luck.
StainedGlass.c4d.zip