Might take me a while to get to this. I read through the code and it's a bit extensive.
For now, I recommend putting the prefab in the scene temporarily to edit it, and then applying the changes from there.
Will probably fix it within the week. Thanks for taking the time to report all these editor problems. :yes:
I'm fixing this but there are some lingering (harmless) inspector warnings caused by internal Unity code that I can't get rid of.
I've added some messages in the inspector too, to clarify what the checkboxes are supposed to do, and I've hidden the checkboxes if they don't make sense to be shown (eg, on a prefab).
Should be part of the unitypackage update tomorrow.
