With the rapid development of computer science and technology, the concept of digital medicine emerges, and digital technique is increasingly used in the field of orthopedics. Finite element analysis (FEA) is a powerful and highly effective method to simulate real experiments, and it is often employed to study the medical issues of biomechanics, biomaterials, surgery simulation, etc. In particular, the application of FEA in the field of foot and ankle is growing as well. At present, the finite element model-based biomechanical analysis of foot and ankle has been widely used in mechanism analysis of the diabetic foot, plantar fascia diseases, foot and ankle fracture and osteoarthritis, as well as in prosthetic design, surgical simulation, shoe and insole design, etc. which significantly enhances the knowledge of surgeons in the aspect of foot biomechanics, and provides new thoughts to investigate and diagnose the ankle-related diseases. However, FEA studies of hallux valgus are relatively limited. In this paper, the biomechanical analysis and modeling of hallux valgus and secondary flatfoot and metatarsal pain were summarized, including the current situation of FEA method in clinical applications, the advantages and disadvantages, as well as its future prospects.