A few things to note/check:
- There can only be 4 shadow lights rendered at once. If more than 4 are in your screen (even through walls) they stop showing altogether.
- Pieces can only be lit by oh so many lights, go to properties > Shaders > Number and tweak the lighting so that no areas are ever RED. Solid red is bad and can create lighting issues/flickering pieces.
- Roombounds affect rendering and how many lights show, so make sure there aren't weird roombounds culling your shadow light, and that if you have more than 4 in your level, that others are culled so that only <= 4 show at a time.