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Dear Stacy,
I am sure you are frustrated by the ongoing symptoms. An ENT can look at the upper airway and sinus cavity. You might need to consult a Pediatric Gastroenterologist (specialist in digestive issues) and a Pediatric Allergist. Hoarseness can be caused by Gastroesophageal Reflux Disease, allergies (food and environmental), upper airway irritation and more.
The irritation to the airway/lungs may be causing your little one to wake up at night. Some babies and most adults have silent reflux: the food comes part way up the food pipe and goes back to the stomach. Do you hear loud gulping or throat clearing after a meal? Wet burps?
Silent reflux can be very irritating to the foodpipe(esophagus) because food and stomach contents are not supposed to have ongoing contact with the sensitive area. The stomach lining is set up to withstand the acid exposure, not the foodpipe.
Non medication approaches to reflux include: small, frequent meals, holding upright after a meal, burp often and loosen the diaper to allow room for the stomach. If your daughter is growing despite it all, a non medication, wait and see approach may be appropriate. I know the sleep deprivation is painful to all. Perhaps sleeping on an incline would help.
There is much information about GERD on this site. Let me know if you have further questions.
Jan Gambino
The Reflux Mom