I even got to the point of playing Super Mario World but wasn’t able to save my progress (thinking the select button wasn’t working). I then tried Super Metroid and was able to confirm select worked and was able to save progress.
Was feeling really good until I rebooted. Once I rebooted and emulationstation loaded the joystick was no longer configured except for the start button and a page down button (or maybe “end” button – all I know is it moves me to the bottom of a list which allows me to cancel out of emulationsttion). And the keyboard wasn’t configured at all. I’ve tried retropie_setup.sh again to no avail.