So just in case someone else has this problem, I thought I would follow up with the conclusion to my thread. I recently tried to code using the Vgate and Bimmercode again and everything was normal. There was an updated for Bimmercode in the interim and something musta changed because now I could also read the trunk ECU and set the option to close via button and fob.
Bimmercode actually replied back to me some time ago as well, maybe 1 month or so after my initial email and assured me that no damage was done and that I just had to wait a while for everything to reset.
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