I guess I'm a little different here.
I have 3 different sewing machines rendering 3 different bobbins. I can never remember which thread I loaded which bobbin. So, I store the bobbin with the thread, using little plastic zip lock bags:
http://www.joann.com/self-sealing-tr...g/xprd1002427/
Sound crazy? Maybe it is! But it works for me. I also recently just purchased a double sided thread box that is big enough to put the bobbins with them, and this works well, too.