This paper is concerned with the vibration analysis of a rectangular plate with multiple circular holes. On the contrary to the case of rectangular plate with multiple rectangular holes, it is very difficult to perform qualitative analysis on natural vibration characteristics because of geometrical inconsistency. In this paper, we applied the Independent Coordinate Coupling Method(ICCM) to the addressed problem, which was developed to compute natural vibration characteristics of the rectangular plate with a circular hole and proven to be computationally effective. The ICCM is based on Rayleigh-Ritz method but utilizes independent coordinates for each hole domain. By matching the deflection conditions for each hole imposed on the expressions, we can easily derive the reduced mass and stiffness matrices. The resulting equation is then used for the calculation of the eigenvalue problem. The numerical results show the efficacy of the Independent Coordinate Coupling Method.