And of course Fluttershy doesn't regret having any pens or barricades to separate hostile animals. Oh no. That would be cruel. Far more cruel than having a baby elephant left defenseless against a snake strangely obsessed with eating them.
Dr. Fauna should be able to handle things like any other vet. They can't translate animal communication to language, but they understand behavior well enough. Though, this is Equestria where everyone beyond the Mane 6 is helpless in order to justify their importance.