I was able to partially resolve this issue by trying to replicate the folder structure of an E60 mk2 with FlashFS and FlashBFS folders.
I also used the maps folder from another T620 Mk1 (without the FlashBFS folder) which a forum member kindly shared.
Basically the FlashFS contained calibration data and another few files, while the BlashBFS contained the autoloader and everything else.
The camera now boots, it shows a thermal image and also displays all the relevant data in the service menu and camera screen info menu, although it shows an asterix next to software version, is this relevant ?
What i'm still missing i think are the individual measurement tools like spot, box, MSX, PIP,etc, basically all measurement applications are missing.
I assumed it was the appkit and prodkit files but i have them and they contain data, i assume i just don't have them paired to the relevant tools/applets serials.
One thing i checked was the Resource Tree and it looks like the fields in the data for measurement tools are corrupted with something like "BadData"
I don't fully understand the Resource tree but it seems to read some failure in opening the tools.
Anyways the best outcome i could have is if i can get someone with the Mk2 version of a T6xx camera to share their full storage (preferably the windows folder aswell) so that i can repair my folder structure.