Survivability of choanal atresia is not usually a concern for most affected babies. In more than half of infants with the disorder, the abnormality affects only one side of the nasal airway. Surviving bilateral choanal atresia can be a challenge, because the blockage increases the risks of oxygen deprivation to the brain and respiratory failure, requiring immediate resuscitation and surgical intervention. Sometimes an infant learns to mouth breathe, delaying the need for immediate surgery. However, mouth breathing can lead to an infant aspirating fluid into the lungs while trying to nurse and breathe at the same time.
Follow-up care for choanal atresia is necessary following treatment because the area may become narrow again. However, with proper treatment, the prognosis of choanal atresia is for a full recovery.