The ghost support ship is normal. It's because textures are still looked for in /data/hud. In there, there's a file called support1.ani, which is used instead of the main texture
However, it's only used after you've been in-mission, so going to your techroom directly and looking at it there will show it correctly. It will be fixed (already is?) IIRC.
Aaanyway.
The meson bomb and the Taurvi have animated glowmaps. The Taurvi and the Sekhmet are heavily reworked texture-wise.

-edit: Also new in this release:
All hi-poly models which are supported and endorsed are included with the ShineLT build. Also includes a slightly altered version of Nico's hi-poly Perseus (changed the cockpit texture and style wise).