In the context of Captain America losing his serum powers when returning to a human state, no. He'd likely keep it unless the writers wanted otherwise.
Otherwise, yes their changes would be reset when species-shifting. Beast Boy changes back to the same human regardless of what animal he was or what happened to him. Only exception would be something like missing limbs or something ig
Ben 10, for example, broke his arm in one episode. The alien he shifted into, being Swampfire, despite that alien's regenerative abilities, still had to wear a sling. Once Ben changed back, his arm didn't get any better.