The present study determined changes in appetite-regulating hormones and energy intake after high-intensity interval exercise (HIIT) under hypoxic conditions in trained female athletes. Fifteen female athletes completed three trials on different days of either HIIT under hypoxic conditions (HYP), HIIT under normoxic conditions (NOR), or rest in normoxia (CON). Exercise trials consisted of two successive sets of eight repeated bouts of a 6-s maximal sprint separated by a 30-s rest. Blood samples were obtained to measure plasma acylated ghrelin, glucagon-like peptide-1 (GLP-1), and metabolite concentrations. Energy intake during an ad libitum buffet meal test was evaluated 30 min after exercise or rest. Plasma acylated ghrelin concentrations decreased significantly after exercise (P < 0.001), but no difference was observed between the HYP and NOR. Plasma GLP-1 concentrations did not differ after exercise, with no difference between the HYP and NOR. Although absolute energy intake in the HYP (634 ± 67 kcal) and NOR (597 ± 63 kcal) was significantly lower than that in the CON (756 ± 63 kcal, P = 0.006), no difference was observed between the HYP and NOR. These results show that HIIT under hypoxic and normoxic conditions lowered plasma acylated ghrelin concentrations and energy intake.