Continuity mistake: When Ash uses his Pokédex to find facts on Hoothoot, his left index finger is not past the right side of the Pokédex, but in the next shot, it is. (00:03:36)
Continuity mistake: When the Pokédex gives facts on Hoothoot, its front hinge does not have a centre part, but when Ash is looking at Hoothoot as it hops, a centre part appears. (00:03:42)
Continuity mistake: When Misty tells Hoothoot to not give up, her bag disappears. (00:12:03)
Continuity mistake: In several shots, Misty's bag switches from her right shoulder to her left.
Answer: Yes it ran away because Layla hurt its feelings.