What do you use to organize your thoughts for a new website or project?
s-phi-nl: A common theme here (which I agree with) is to use paper (whiteboard, sketch book).  Paper allows two-dimensional organization of text, whereas computers force text to be one-dimensional.  This linearity, which allows only two branches on a single idea, is too constraining for my creative thinking, during which two ideas branching out from a single original idea.  You can of course use lines to implement two dimensions in plaintext, but I find this clumsy.