Sigh, quick reading made me think answers were suggesting plugins work directly with Rosalina, as in without needing to boot up NTR CFW.
I bet they could do that, but it would still retain the issue of after you boot one game with an NTR plugin and then launch another of just hanging at the 3DS load screen. Until that issue is resolved (if it ever truly can be), I can understand why they may not implement NTR plugins into Rosalina, as that would lead to a lot of hard resetting.