I use a system at home and at work that are, I think, much like an extrapolation of GTD to putting things away (and being able to retrieve them). Here, I'm talking about physical, three dimensional objects, as opposed to filing papers in a general reference file.
I went to Wal-Mart and bought a whole punch of clear plastic boxes, about shoe box size, with snap on lids. I then put them on bookshelves, and as I dropped stuff in the boxes, I printed out a label on my label maker and stuck it on the end of the box. Now, I've got stacks of boxes, neatly organized on shelves, with what amounts to a neatly printed index on the outward end of each box. I don't worry about alphabetizing the stuff, or even with necessarily grouping similar things in the same box. When I need to find something, I can quickly scan over the "indexes" on the ends of the boxes and find what I need -- never takes more than about 10 seconds, tops, to find what I need.
Like others, I have pen/pencil holders, a little paper clip holder, etc. on my desk, and tape and a few other frequently used supplies neatly organized in a drawer, but most stuff is in the boxes (including boxes of more clips when I run out, spare batteries, etc., plus extra computer cables, refills for my Notetaker wallet and pen, additional printer cartridges for my inkjet printer, and so on).
Also, I have the same system at home and at work (including general reference filing system). The only thing I don't duplicate at home is my tickler file -- that resides solely at the office.
Randy