It was probably Tranquill or Unfezant.The only clues we have is that it flew away and that it was on top of the tower. So it's something capable of flight, and something that's not so heavy that it would be improbable for it to get to the top of the tower. Given where this occurred, I think it's safe to say it's a Pokemon from the Unova region, possibly from the surrounding area. Actually, it's most likely from around the Celestial Tower area, as something injured isn't likely to get too far from where it came from. I think we can safely rule out Thundurus and Tornadus, as I'm pretty sure Skyla would have said if it was a legendary. This leaves Tranquill, Unfezant, and Emolga.
With a mustache.
Well, that was the point. All the gym leaders got to have some kind of plot or activity outside of their gym. She just took the initiative to help a Pokemon in need, like you would have. Your journey up the tower was literally just you waiting for the battle until she was done, because she wasn't in the gym.I thought that was a bit weird... In Generation II and their remakes you had to help a sick Ampharos at the light house recover, now you're just told about an injured Pokèmon and you never get to see it.. .it felt a bit pointless. Almost as if entering the villains lair and realizing someone else has already killed him.
i think i'd actually back this up. Rayquaza lives in the Ozone, which, if i remember my schooling, covers the entire planet, therefore it showing up in Unova wouldn't be too crazy, although it raining wouldn't really work since 'Quaza cancels out weather.Rayquaza.