I am sorry about what your son and you have been going through. It is possible that when the hypothalamus is impaired from a hemorrhagic stroke temperature regulation might be affected as well since it is the part of the brain which regulates core body temperature. However he should be evaluated for other possible causes as well. A hormonal panel must be obtained to judge for hormonal alterations like those produced by the thyroid, pituitary or adrenal glands. Another possible cause since you mention digestive problems is also severe malnutrition. Also please make sure first those readings are correct and reflect his true core temperature is correct. For those values a low reading thermometer placed in the rectum is necessary, also if the rectal thermometer is placed in the stool it can affect the reading. I hope to have been of some help.