How to treat indigestion in infants Indigestion in infants is a disease in which babies experience symptoms such as diarrhea, vomiting, and abdominal pain after eating. The digestive system of infants is not as sound as the digestive system of adults and requires our careful care. Let experts teach you how to regulate your baby\’s digestive system from aspects such as diet, sleep, and getting up frequently. Plan 1: Reasonable diet. Diet is the key to conditioning the baby.