To ensure the correct exposure, you might have to open a few f-stops in very light conditions or put more light directly on the plate in dark conditions or setups.
I would not open the aperture, that would change the behaviour of the lens, Instead use a higher ISO or longer exposure if possible.
In short:
1. Take a photo with a calibration card (or just a thin piece of white plastic - just be sure it's even) right in front of the lens. Try not to leave any gap between the lens and the plate as light coming from the side could (in theory).
2. Take the photo without changing anything about the lens (same aperture, focus, movements...).
3. In CaptureOne you can create a LCC profile for the calibration shot. You have the option to include dust settings but I had some problems with that, it used to crash while doing that and it also takes much longer.
4. Copy the LCC setting from the calibration shot and apply it to all the photos you took with the same lens settings and movements.
However keep in mind that lens flares can not be reduced or removed by this method!