Calcium fructoborate is primarily used as a dietary supplement due to its role in supporting bone and joint health. It helps enhance the absorption of key minerals like calcium and magnesium, contributing to improved bone density and reduced risk of osteoporosis. The compound is also known for its anti-inflammatory properties, making it beneficial in managing symptoms of arthritis and other joint-related conditions.

It supports connective tissue health by promoting collagen formation and stabilizing joint cartilage. Athletes and active individuals use it to reduce joint discomfort and improve recovery after physical exertion. Additionally, calcium fructoborate may support cardiovascular health by helping maintain healthy blood vessel function and reducing inflammation markers in the body.

Some studies suggest it can boost antioxidant activity and support immune function, further broadening its use in wellness-focused supplements. Due to its stability and bioavailability, it is often preferred in nutraceutical formulations over other boron compounds.

In agriculture, calcium fructoborate is used as a boron supplement in fertilizers to help plants build strong cell walls and increase resistance to diseases and pests, particularly in boron-demanding crops such as legumes, squash, cucumbers, and tomatoes.