Well, that seems like a very obvious sign to the lackeys that either Fluttershy is way higher from their skill level than they expected or she totally isn't completely outnumbered. As a cowardly, yet perhaps logical move, they decide they would rather ditch the ringleader than stick around.

"Get back here! Though soon enough he figures to take the same hint. "... My father will hear about this!

Good riddance though as Spyro flaps his wings for a midair liftoff and a sign that she can release the magic since obviously Fluttershy's use of the levitation spell isn't meant to restrain him. He freely glides over once she does.