Hi Geir.
No issues with your frames - they all look normal.
Start
here.
Create master bias, master dark and master flat, then calibrate light frames.
The master bias is processed differently. Convert raw bias frames to .fit and integrate.
If you use Format Hints, that is type 'raw' without the apostrophes in Output hints in the image calibration window, that will force proper raw conversion irrespective of any other settings.
I suspect that failure of the master flat to calibrate the lights may be related to generation of the master flat - can't be sure of that. Basically, load your raw flats into image calibration and calibrate with the master bias only, then integrate. No need to deBayer bias, flats and darks.
If you are still having problems, post your work flow.
ap.