Ahh yes. It's a bit confusing. I have 2 folders with tools!
One is "
Super Substance Tools" which does exactly as you said (looks like older one for Traditional).
And the other one is "
Substance Super tools", which has all tools marked as PBR. Those work correctly and all channels are flagged.
I do not remember how I downloaded them, but maybe you need to update.
Edited
2 Years Ago by
4u2ges