We are currently unable to save/publish NWD's when using the BIM 360 Issues Addin for Navisworks. This is a fundamental flaw as it is VERY COMMON to need to produce NWD files from NWF.
This is a known issue but a BIG issue for real world usage...
https://apps.autodesk.com/NAVIS/en/Detail/HelpDoc?appId=5155805354033590972&appLang=en&os=Win64
#AECOM