A little update. I have been waiting for some XLR to 1/4" TRS adapters, so I could use the same soundcard (focusrite 2i2) for both input and output.
Previously, I have had the focusrite for input and the oppo for output, and POS advised me strongly against this.
Hopefully, this was the cause of the comb filtering in my measurements.
Now the adapters have arrived, so I will have better quality measurements as soon as I get the time to do it.
I also used 4 sweeps for every measurement before, and that can under some circumstances cause spikes in the curve according to the REW helpfile. So I will use 1 sweep from now on.
I will also use ASIO drivers instead of Java. It was not possible in REW when choosing different input/output soundcard.