It would be patching directly the main.npdm but i don't really like that, this is bound to be fixed sooner or later and we don't really know the effects of changing that flag since it's related to kernel access. In this case layeredfs is a cleaner method since you can delete that folder in your sd after your CFW gets support for that. That's my opinion about the matter.
Yes, makes sense. We just need to be patient and wait for SX OS to release an update on the matter
Thank you.