Probably nothing. When breeders are trying to establish a breed (or preserve some genetic mutation, like devon rex and scottish fold cats), they intentionally inbreed over several generations.
When was the breeding? If very recently, go ahead and have the bitch spayed. The surgery is longer and has a slightly higher risk for in-heat and pregnant dogs, but it can certainly be done.
If not, have the puppies checked for cleft palates and other issues when they’re born, and in the meantime, have the male castrated. As soon as the puppies are weaned, have the bitch spayed. Make sure that the homes that you place the puppies in sign a contract stating that they will spay and neuter the offspring.