Update:
So I have Lilly on obey now and I'm starting to get used to handling her actions and my own. I've added her actions to my hotbar. The only Macro I use with her is essentially tying physick and embrace together which has worked really well so far.

my only issue is how sluggish her response time is. I hope square addresses this in stormblood so she actually casts whispering dawn the first time I select it >.>'