With any of the last nightlies, maybe the last ones containing mupen64plus updates, you changed the name of the script to launch the games from m64p.start to mupen64plus.start, so the spoiler in the initial post of the is not correct anymore. I realized it today launching one N64 game and ES returned to the list of games. So I verified the script through SSH and found the name has changed. So I changed the command to launch the games and tomorrow I'll give it a try, but I think it should be okay.
One question about N64 emulators: with the last updates of your distro, is it better mupen64plus standalone or the retroarch N64 core? With the previous versions of the distro, for my setup, it was better mupen64plus standalone. Thank you