Artisian magazine has been doing a monthly article on file organization for more than a few months now. Started in September 2009 and is still going on. I found it really good. Does a lot of things I already do and gave provided some tips I hadn't thought of.
For example creating a folder that holds a copy of all designers TOUs. Makes it really easy to look up the designer TOU when you have elements sorted into different folders, because most designers include their name in the file name.
I won't tell you my son's reaction when my computer died and I backed up the harddrive to his computer and he discovered I have a Scrap_Zip folder that contains all the zip files of kits I've got in the last 18 months and it was over a 100gb.
What operating system do you have?