What is the prognosis of a stroke in hypothalamus?

Guarded, but depends. The hypothalamus is a critical region and a stroke-either hemorrhagic or ischemic can have profound symptoms. It depends on the extent and size of the stroke. If there is coma as a symptom, the prognosis is not as good.
Hypothalamic stroke. The prognosis of a hypothalamic stroke is complex because there are many endocrine factors controlled from there, for example thyroid and many other hormones. It would depend on the size and severity of the stroke.