Board Thread:Wiki Discussions/@comment-25369463-20141004034349/@comment-1210805-20141006084231

Generally, just going by what we can observe, the anime and Shueisha will use Kishimoto's colourings if they are available. If they are not they either make them up themselves, or sometimes take from each other. Sometimes they will change to follow Kishi's colourings when they become available, other times they tend to stick with what their own audience is familiar with.

As for the original question, I'm undecided on which colouring I prefer for Naruto, but much prefer Kishi's purple Rinnegan for Sasuke. Back when everyone here thought it was red, I was incredibly annoyed with the idea Kakashi and Sakura seeing Sasuke with a red, tomoe covered eye and somehow concluding that it was a Rinnegan. I also think it just generally looks better purple.