Gamepad unresponsive after updating from Clean install 4.7.1 RPI4

[Emulatre71]

Raspberry pi 4 2gb
RetroPie 4.7.1 (RPI 4 ISO)
Retropie iso image from Retropie site
Gamepad: 8Bitdo SN30 Pro usb

Starting from a clean install of RetroPie and then going straight to updating RP packages then updating RP Kernel the controller does not respond. I would have to go grab a keyboard and then hit enter to get past "ok" option and then reboot from the Terminal (F4 key option) to get my controller working. (It was update to RetroPie 4.7.12, but this has happend to another clean install updating to RP 4.7.11 as well)

In the past I had a few issues with RetroPie concerning gamepads. There was that time when the Right and Left triggers were not allowing me to enter them right from a clean install. I would like to note that on another RPI 4 unit running 4.7.11 that the gamepad configurations do not save and when you exit a rom the controller is unresponsive.

[mitu]

Can your run

ls -la /opt/retropie/configs/all/retroarch-joypads/

and post the output ?

I would like to note that on another RPI 4 unit running 4.7.11 that the gamepad configurations do not save and when you exit a rom the controller is unresponsive.

This means the configuration of the gamepad is not saved in the EmulationStation's configuration file. Can you post the contents of $HOME/.emulationstation/es_input.cfg ?