@Joe thanks for sharing
well I’ve tried all the configs for this problem domain. I’ve managed to create a new dummy virtual server and I can confirm this one worked as domain user for php when I check phpinfo(). So the server looks to configure new domains properly. It would sure be cool to see virtualmin code as it does the config so I could follow it and see maybe an indication of what could have gone wrong with my problematic domain.
I also tried to fine comb through the apache2 .conf file of this working dummy domain to ensure its the same for the problematic domain and it just will not give me the domain user in FPM. buggers
Anyway, unless there are other tings to check I’m assuming my best course of action will be to backup, delete this domain and re-created it… too bad, I would have liked to have found the problem so I could report it here.