There was once a time I named each box by type and separated the Pokémon for each category like a good lil' PC boxer. Then times changed. Now I opt to just throw everything in the box as it comes instead, only separating when necessary and never naming them. On the rare accounts I do go back to my old (better) ways I have a box for Eggs named Doom, a box for Legendaries named Pretties, and a box for my alternating team of 6 named Champs. That is as far as I go now.