In this paper, a finite element formulation was introduced for the three-dimensional cure simulation of composite structures. Based on the formulation, a three-dimensional finite element code was developed. Numerical examples found in the literatures were solved for code verification. Results from the present analyses agreed well with the measured cure-induced temperatures. Unlike in one or two dimensional analysis, temperature and degree of cure were able to be calculated at any point within composite structures in the present analysis. The finite element program can be used for the cure simulation of composite structures with arbitrary geometry under non-uniform autoclave temperature distribution.