THIS IS MY CHOSEN METHOD:
I have chosen to use those bead containers I'm sure you've seen everywhere. However, through much trial and error, I have found the best container to use in this respect are the ones that are more like the daily/weekly pill boxes (generally found in most pharmacies). Reason being is because in the original, cheap-o version, each section is not individually closed; therefore, you will have eyelets and brads mixing into the other sections, getting them all mixed up.
You can get this container (or a version of it) in any craft store. Check the cross-stitch section or sewing sections first (the price will, most likely, be less). You can also check your local pharmacy up by the pharmacy counter.