Still, when you load them into Slicer, this is not what we see. In this screenshot the small red object is the low res skull and the gray one is the medium res skull. If you just open the two obj files in a text editor you see why, the magnitude of the point cooridnate values is quite different. For some reason also orientation is different, and I’m not sure why is this difference when they are supposed to describe the same object.
This is why I suggested scaling up the labelmap resolution, and @lassoan suggested scaling down the skull.
