This part is a fairly common limitation in current real-time implementations of the PBR Transmission property — opaque objects are visible through the transmissive material but other transmissive materials, and perhaps materials with alpha blended transparency, may not be visible. I think I see the same behavior from Blender’s Eevee renderer as well. Materials using alpha blending transparency instead of transmission will not have this limitation.
This may just be a bug or limitation in the Gestaltor viewer then – if I had to guess, they may need to disable depth writes for transparent materials.
One workaround might by to try exporting with Transmission, but with “Blend Mode: Opaque” instead of using alpha blending. Usually it isn’t necessary to use both, and alpha blending may be causing the issues shown.
After following your advice to no avail, I set up a new test scene with 2 cubes, one with transmission turned on and Alpha Opaque, the other with just a random material. Worked perfectly first time.
For my scene, I just created a new material for the problem area using these settings and it worked straight off the bat. I’ve no idea where the difference in the materials lay. There was something in the Face Maps tab of the object data, which I’ve no idea what it was. I removed that also. Either thing may have been influencing how the object displayed after export.
Long story short, thanks for the help. Got me out of a jam.