Sorry I was having huge issues responding to this thread for a while.
I have figured out how to read an ECU from my Jetta via the OBD. I'm now trying to read an ECU connected via the OBD and in Boot mode by grounding the pin.
I can get the "Immo" indicator light to prove out correctly so I know I entered boot mode successfully but can't read the ECU thru the same way I did
Is this where I need to use the ME7EEPROM tool to gain access?
Well, are you trying to read/write Flash or EEPROM? To read/write flash in bootmode you need a flash tool that supports bootmode, like Galletto or MPPS. Nefmoto has the dropdown option but it doesn't work. Most people here use Galletto and hexedit the EXE to support their current FTDI cable, plenty of threads if you search. If you are trying to read/write EEPROM, then yes, bootmode is the right place to start for the EEPROM tool.