The invention relates to a functional health care beverage and a preparation method and an application thereof, belonging to the technical field of health care beverages. The functional health care beverage is characterized in that the beverage comprises the following substances: 20-50% of Hibiscus manihot tender fruit, 5-20% of Chinese wolfberry fruit, 10-20% of Chinese yam, 5-10% of honey and the balance of purified water. The beverage provided by the invention has sufficient nutrition and high value of health care, contains a large amount of flavones, polysaccharides, chlorogenic acid, trace elements, amino acids and other functional factors, and belongs to pure natural green food beverages. Except for strong nutritional and health promotion effects, the beverage also has auxiliary therapeutic effects of resisting fatigue, enhancing endurance and immunity, nourishing and protecting liver, tonifying kidney, strengthening yang, resisting aging, scavenging free radicals, lowering blood pressure, reducing blood glucose, promoting digestion, strengthening stomach, moisturizing intestine and caring skin after long-term drinking.