Changes

C:\Users\PC>"F:\Emulators\Mupen64Plus\mupen64plus-ui-console.exe" "F:\Games\Super Mario 64.n64

: To change plugins, after you've dragged/dropped mupen's exe into cmd, hit space and type "--gfx", hit space, then drag/drop the plugin you want to use, hit space again, and then drag/drop the game you want to run and hit enter. Which should look similar to:

C:\Users\PC>"F:\Emulators\Mupen64Plus\mupen64plus-ui-console.exe" --gfx "F:\Emulators\Mupen64Plus\mupen64plus-video-glide64mk2.dll" "F:\Games\Super Mario 64.n64

: To change settings open mupen64plus.cfg, or the plugin's .cfg/.ini file in notepad++.