All this said, clean the files, or don't. It's up to you. If you plan to utilize DynDOLOD in the future, then yes, clean the vanilla masters so you can take advantage of the large reference bugs workaround. Either way, I encourage you to still read the following sections to gain...
Be performance conscious during development - think about scene complexity, do I need to add this in? is it worth the performance hit? A good time to optimise is when you are not hitting the desired frame rate. Some features look amazing, but are they worth it? (each frame has a budget...