To be honest I can’t say if the skylight can handle that or not.
You could do a quick test and move the skylight into the lighting scenario and see if there are any visual differences compared to having it in the persistent level. If it all looks the same, then you could probably keep it in the persistent level.
On a side note, generally I try to keep the persistent level clean and instead put stuff in different levels. That way you get more control of how you compose your levels 