To meet the application need of the separation of signal subspace and noise subspace in the MUSIC algorithm, this paper presents an improved Jacobi algorithm--parallel Jacobi algorithm, and gives a method of achieving the modification of data covariance matrix eigenvalue decomposition based on the Systolic Array structure. The vectoring mode CORDIC algorithm and rotation mode CORDIC algorithm are adopted to realize the Systolic Array structure. Fixed-point operation of 16 bit is selected by system finite bit-length. The whole matrix eigenvalue decomposition consumes 24 372 basic logic elements in FPGA, the maximum system frequency is 145 MHz, and the lowest time consumption in achieving once matrix eigenvalue decomposition is 14.82. The theory analysis and experiment validation show that this method is of high precision, and fast in speed, which greatly improves the real time property and enlarges the application scope of MUSIC algorithm.