Well, I thought I knew FFVII untill I started posting here. This one is hard.

Not Your Enemy- Then perhaps an obstacle? Or a Chocobo perhaps?
But in the way- If it's in the way, it is likely some kind of obstacle that isn't necesserely an enemy.
The seprants spell can clear the path- This implies one can fight it, though it isn't an enemy, and is really what has me stumped.

Perhaps that giant bird that attacks that girl in Junon?

Looks like Forest Owl won. I forgot all about those darned flames!