Need help ripping stages from Shadow the Hedgehog.

[Telespentry]

Using the bms script found here I have managed to rip the majority of Westopolis with some major issues. First, there are random lines connecting polygons that should be completely separate. Second, every other polygon is facing the wrong way. Third, for some .rp2 files the output .3ds is corrupt. 

Here are a couple samples. 02 works fine but 16 outputs a broken .3ds file.