I went to look to see how I have mine stored..and realized I have them in THREE places! In my defense, I inherited some with my current machine, I had some from a smaller set up and I have the ones I purchased. I use mine the most. I am thinking I need to weed some out!
Some are in an old wastebasket, sort of sorted by size. (some wont' fit under the shelf!)
Some are in one of those wire shelve sets. I made a cube and the longer ones fit in the open holes. You can see pieces of my Red Snapper loading set. And the smallest ones are in a shoe bag that is hanging on the back of the door. I rarely use these as alot of them I bought early on. I can freehand most of those now. Mostly I use them for ideas. I love to see how others organize theirs...