As I understand from old days nothing changed.
After some comparison with other modern photogrammetry software commercial and opensource I found that only photoscan required masks. And create mesh with known amount of polygons that reproduce dense cloud shape with all it noise.
After read some of research papers with dense, mesh etc. reconstruction I understand that
all photogrammetry work with 3D volume in Photoscan stop after dense cloud generation.
After this step is only "brute force" generation of mesh with other post processing of this data.( poison, decimate, laplassian smooth, etc)
While already exist different algorithms that use depth map data in mesh reconstruction and mesh refinement steps.
Autodesk Remake, Bentley ContextCapture, CapturingReality and OpenMVS use such algorithms. And results in this programs or toolsets is looks clean and have more details (details != noise) than from Photoscan.
I hope Agisoft team made something with this and shift quality of it great app to quality comparable with other modern software by changing current used but autdated algorithms to modern.