Hi, thanks for reaching out.
Yeah it seems like while some loops do align, others tend to spiral, causing them to criss cross. I have tried fixing the geometry, but I cant seem to solve it.
I would love to share my files with you, unfortunatly the PasteAll.org site does not work in this situation, since the file is too large. Also thanks for the invertion tip!
Perhaps I can send you the file via email or Sketchfab?