Restart / reboot losses

Morning all,

Im having a couple of issues with losing my setups.
Im still very new to HA so please excuse my ignorance here.

I have set up HA on a pi4 using PI imager onto usb SSD.
HA is up and running and I have been able to integrate 90% of my smart home over so far.

Through my readings, I have been having issued getting Add ons to start up, Logs are indicating “Successfully started” but im unable to run them, so as advised, done a power cycle (after a backup)
However, upon restart, I am greeted with the HA setup page as per initial installation,
All my add ons and devices are gone and I have to start again.

I am unable to access install Hacs through terminal as it keeps coming back with “Manually change root”

Im getting a little freaked out with the Idea of doing another reboot as it took me 12 hr to get my last backup loaded up again.

“Reboot system”
Restart the system running HA and all add ons.
this for me is essentially performing a system factory restart. :frowning: