You will have to rebuild your landscape and likely physical material between edits.
When I was using physics-masks inside PCG, this seemed to be a regular thing I would have to do to make sure any updates on the landscape took, else I saw what you are seeing that ALL the points come back as a single physics-type.
I’ve moved onto using grassmaps RVT sourcing inside PCG as it seems just as fast and less problematic (always up to date vs physics).