The stage between model and POF is always the most frustrating and nerve-wracking, I often have to recompile models 15+ times as I spot errors on them etc.
Some things are really wierd, like the axes on turrets etc, and I tend to find that saving as a SCN file and converting that in PCS is actually slightly more reliable. Don't give up, once you find the common 'pitfalls' they are usually easy to avoid, but it does take time to learn things that PCS may not like, and I still have to re-read the Truespace hierarchy system for ships every time I make one
