I've figured it out, after clean reinstalling Retropie all is working fine. When I go to Retropie Setup and only update mupen64plus via core/main packages (didn't remeber the exactly one) the same issue comes back. Anyone has an idea ? Update: Ok i keep it up testing and there is one more thing. If i did'nt update all works fine. After that i manual edited the mupen64plus.sh to that one which is used after updated mupen64plus package. From here the issue comes back again. So it seems, there is a bug in the new mupen64plus.sh handeling the texture packages.

If you put the section in, as in my post in the other thread, and load Rice HiRes, it does work, but as soon as you load Glide it seems to remove the section again.