Scottham, try to find out if a D-dimer blood test was done when you were checked for PEs, as well as your oxygen saturation levels ( should be 94% minimum if lungs healthy). Blood test would be high, O2 saturation low in face of a PE. You can buy a pulse oximeter for home oxygen monitoring for about 50.00 at most stores and Amazon. Well worth the peace of mind! I have never heard of GERD causing hot flushes in head and neck. Since your symptoms are persistent and perhaps worse I think you should relay this information to your doctor. You should also have a hyper coagulation (excess tendency to clot) workup by a hematologist to determine if any other clotting disorders are present, as there are many that can coexist and require different treatments. Please keep us posted on your progress!