I'm sure that is why Bethesda removed the shadows from these textures for SE. For example, the plants and grass aren't very good because the mix of LE shadowing on the texture with SE lighting isn't good. It should probably be tested against SE vanilla textures, though.
There is probably little reason not to include this mod. Confirmed that some new artifacts are introduced due to batch processing and that the mod is packaged in a way that utilizes base game files in a non-standard way for modding.
