[Because I am still eyeball deep in Oracle-speak]
So, as it turns out, Scrivener is all that (sorry, Barth). When I got to the train, I opened the laptop, went to the search box in Scrivener, typed “yellow pages” and was taken right to my note–buried somewhere in the ancillary materials of Chapter 7 of HARRY.
While I don’t entirely like the way Scrivener does its output files (can you settle on a freakin’ right margin already?), I am in love with the way it allows me to stash notes about the project without them intruding on the actual content.