Well done for getting this working Kristoffer.
It makes sense that the non-working PM95 won't respond to flukesavecal because the main software needs to be running for that to work whereas flukev4dump just requires the kernel to be running.
I checked the dump from the non-working device and it's fine. I successfully loaded it into my PM97 which then temporarily became a PM95 with version 3.25 software, so whatever is wrong with your PM95 it's not the processor or the flash.