By no means a substitute for the wishform, but a place for (mostly) user-to-user discussions:
InDesign Feature Requests
Creating folders in the Swatches Panel?
Great. I'll second that idea.*
Since day one of InDesign…
* But how will that be IDML-ed for older versions? [Just a rhetoric question]
I'd wish folder for master pages and cross references, because the list view in the panes is terrible and not configurable. For cross refs I'd also like to have that the pane list the page where the cross ref is placed.
Just some thoughts...