Might be an issue of ATM. I had the same problem but got it fixed: Before adding any other mod, I installed one part of Astronomer's pack at a time (EVE, then clouds, then auroras, and so on...), always starting KSP in between. After the whole pack was installed, I added ATM and everything looked fine. Make sure you start KSP using -force-opengl, or it might not be able to load all the uncompressed textures without exceeding the maximum memory. Generally, I have made the experience that you should not add too many mods/parts/textures before loading up KSP again. Starting KSP after every single mod installation seems to be avoiding a lot of issues.