So I just purchased the new Bellerophon class Intrepid refit the other day and decided to start messing around with the parts (because I'm devious and unsatisfiable like that). And when I started mixing and matching parts I encountered a graphical glitch.
It seemed to occur when swapping out either the hull or the nacelle pylons for a variant part. I've included some screens in the link below. The part that is specifically in use in the picture is the standard intrepid pylon, but I was able to reproduce the results with the other two pylon variants as well as the hulls of the original three intrepid designs.