Hi, I'm sorry to hear about your wife.
Is she choking during her cough attacks, or is it after? If it's during, she may have the whooping cough. I suffered from it in 2004. And actually, it may be coming back for me. I just had an attack tonight at 5am. I wish the best for your wife...and you!
Reflux is a common cause of night time coughing. There are definitely medications to treat the reflux to control the acid causing the cough. If the antacids do not work, there are other agents that can be given to help control this problem. It is best to control the stomach problem rather than the cough.