Hi, QGO can't alter height nor controller calibration, it only change the refresh rate, cpu level, gpu level, ffr level , etc..., and all the modification QGO do are reset to default when shuting down/rebooting the device. So you risk nothing 😉
Nobody reported this issue since QGO was born and don't have the problem myself on my 3 headsets.
Anyway did you try to reboot the Quest ? Did you try to redo your guardian virtual boundary, did you try to clean your guardian virtual boundary and redo your guardian ? Did you try to reboot your controllers ? Are you playing in a dark room ?
All these things could help.
And yes this v64 have some problem but I don't have this one.
EDIT : you can also try to disable Lying down feature