Nice one Fabe
I would usually have all that sorted before going into Calibre, I completely forgot about the Calibre options. I hope it comes off gremlin free. If you do get any hic-ups you might try epub to epub to build your multi-level TOC first and then use that file for conversion to mobi.
I'm a few time zones ahead of you, so I'm calling it a night. I look forward to hearing how you get on...Good Luck!!!