I was attempting to follow the guide off from the Skulls GitHub page using a Raspberry Pi 4.
I tried making a backup of my BIOS with the clip backwards and also inserted the clip with Raspberry Pi side already connected and on. I'm not sure if this is enough to kill the chip. Most guides seem to reference the CH341A so I'm not sure if it's as fatal.
I'm not sure if the chip is dead or something else is wrong but I keep getting the same "No EEPROM/flash device found message". Any tips or suggestions?
Connecting the clip backwards will likely kill the flash chip. As long as it didn't kill anything else, you can just replace the chip and flash a new image to it.
you could try turning the laptop on.
as for flashing, make sure that you have the pins correctly connected on the pi side. if you're using some color code you found online, it may not apply to your clip - consult the chart and follow the wires manually. the pins on the chip are numbered counterclockwise starting at the dot. You can also try reseating the clip a few times, some clips can be finnicky.