Textures not moving within the smart material

I am having this one concern on where I want to use a smart material on 1 of the 2 meshes that I have, the other one being exactly the same, but with a different position.

The thing is that the smart material has textures as layers (from the Assets tab), so when I import it to the mesh, some parts of the original texture that were in the other mesh didn't appear correctly on the one that I imported it to, I've heard that this is due to Substance's smart material behavior within Layers.

Correct me If I am wrong, but is there a way to fix that? I did find one, but it's manual and doesn't fix everything in the texture, since some are layers and can't be adjusted.