What do you use to organize your thoughts for a new website or project?
alanthonyc: I'm in the same situation and after experimenting with various tools (basecamp, evernote, things, and more) I'm now down to two major tools:  - a whiteboard at home
  - a wiki (simple install of dokuwiki)

The whiteboard is for brainstorming and sketching stuff out and for when I need some kind of physical feedback to my thoughts getting laid out.The wiki is for laying out basic designs, taking notes and logging my development progress.  Also for keeping track of a schedule I've set up along with milestones to hit.  It's a simple tool, yet very versatile because of the ability to easily create new, linked pages.Some secondary tools, used sometimes: google calendar, voice recordings on my iphone (for when I'm driving), etc.