I don't coordinate by color scheme, I coordinate by theme.
>all the Bug-types (and Flygon) in a Net Ball or Park Ball
>all Water-types in a Dive Ball or Lure Ball
>all Fairy-types (plus Blissey and Clefable) in a Heal Ball
>all Steel-types and heavy Pokémon (especially the Regis) in Heavy Balls
>all Dark-, Ghost- and Poison-types in Dusk or Ultra Balls
>all Grass-types in Friend or Nest Balls
>all Dragon- and Fire-types in Level Balls
>Ground- and Rock-types in Ultra Balls
>Normal-types in Great or Luxury balls
>Electric-types in Fast Balls
>shinies in Repeat or Premier Balls
>legendaries in Timer or Master Balls
GF should really allow to change Pokéballs. I really, really would like a Park Ball Flygon and a Beast Ball Porygon.