This thread from last year outlines my workflow and a first cut at tackling it via Tinderbox:
Since then, I’ve tried the same approach with other projects, with mixed results. Creating a Tinderbox Map view to help me see patterns in research materials works really well. Attempting to convert that view back to a linear outline – either in Tinderbox or another tool – that I can use as a starting point for a draft often leaves me wondering why I don’t just use Post-It notes.
(And it doesn’t help that I tend to have more time to putter on the front end – organizing material – than on the back end, when I’m ready to start writing.)