In this message I wrote like Astrophotographer and not like Developer … so read in this spirit !
If possible separate L from RGB, good data is needed in L.
For RGB doesn’t do so many for slot or your will have not good color, better to have small slots and use repeat to cicling in the 3 color, best is to create a slot long exactly to have only one refocus. If you want to do color all in one slot before switch to next color you must understand that blu need to be done at higher altitude possible for target, you can get the red at lower and in the middle green. But if you cicle between you will have more homogenous data to process and solve resume “problem”
Some automation software have forced to change the paradigm to choose the exact number of shot to do for filter and this have decreased quality of data without you all have this clear (just look at average results of years ago to average of actual AP images) … I can understand you dont want to listen a 15 years old astrophotographers and for this reason I will do the memory sequence This will solve all but only on the paper … truth is something different from theory
When you have a cloudy nights , its a cloudy nights … difficult is a good night for good data. But this is another story.
A little note of humor … If you want to make a target all in one night because otherwise you think you have lost the night, know that after 15 years you will laugh at it and you will understand that the objects to do are not so infinite and that the the only solution to have stimuli is to change the instrumentation and you will find yourself always remaking the same subjects.