We sort of did this in reverse, without flying. Van from Pura Vida in Dauin to the ferry dock. Ferry ride to a dock near southern tip of Cebu Island. Van ride to a resort in Moalboal. Then a week later, long van ride from Moalboal to Cebu airport, on the order of 4 hours. It was nice to not worry much about drying or packing carefully between the 2 spots and it made sense for our trip. But Cebu is big, if I were flying into Cebu with the intention of traveling on directly to Dumaguette I would catch a domestic flight.