I made a new test project in an updated version of Unity.
My only steps for this were:
Import Auto Setup 0.13 package via package manager (install from disk)
Create a Character folder to copy the assets into
Copy exported fbx assets into the Character folder (all 4 files)
Use Auto Setup Import Character on imported asset - set to High Quality
Toggle on preview scene + turn off gizmos
I have an error message ( "Assertion failed on expression: 'SUCCEEDED(hr)'")
Edit: NB no diffusion profiles are assigned for any of the affected materials. Teeth (upper and lower) and tongue materials are also affected this time.... though the eyes are fine. I think that problem before must have been linked to the transition from URP to HDRP. There are no diffusion profiles available to select.
Edit 2: The eyes are fine only in the preview scene. If I drag the prefab into a regular scene (only direction light and a plane) then the eyes are black/missing.
77% of original size (was 657x19) - Click to enlarge