I'm not going to argue that Jean was attracted to Logan - just that that's where it ended. She loved him platonically and was attracted to him in an animal sense.
I honestly much prefer things like the dynamic between Jean and Logan in Evolution and Extraordinary/OML where they're more like family than lovers.
*EDIT*
I went back and skimmed through Generation, and Jean's pink mimics the Phoenix there as well. Def think it's just how she subconsciously manifests that power.
She did it when she used it back in the 90s, too.