So, each time you do a Dip mission, you get some dark or light points for the dark or light theme/nature of the mission, and some dark or light points for the position of your toggle. If the two sets of points are in conflct (light mission+dark toggle OR dark mission+light toggle), you get both sets of points, light first.
I do not know your methodology but for me, it has always awarded what was toggled first and what was the nature of the mission afterwards. ie: I have light toggled and the mission gives me the light points first and dark second and conversely I have dark toggled and get dark first and light second.