If you don't use macros for pet abilities (which I don't since all my healing skills are macro'd which would cancel it out), you can just make a summoning macro that places the skills you want on a given hotbar when you call out either Eos or Selene.

Eg.
Code:
/micon Summon
/ac "Summon" <me>
/hotbar pet "Whispering Dawn" 1 9
/hotbar pet "Fey Illumination" 1 10
/hotbar pet "Fey Covenant" 1 11
Code:
/micon "Summon II"
/ac "Summon II" <me>
/hotbar pet "Silent Dusk" 1 9
/hotbar pet "Fey Light" 1 10
/hotbar pet "Fey Glow" 1 11