What do you use to organize your thoughts for a new website or project?
dflock: I make lots of notes in Tomboy (http://projects.gnome.org/tomboy/features.html) - which is a personal wiki/notetaking desktop app, primarily for Gnome, but has an official Windows port and alpha web sync. It can also be synched to a local folder (I sync to my Dropbox), to a webDav or a SHH destination.I find it really handy.