Based on the experimental results, in which the fabricated error of the double layer frequency selective surface (FSS) leads to the transmission loss and the resonant frequency leaves away the design resonant frequency, the inter-layer separation distance (ISD) and the unit cell aligning error (UAE) were used as main variables to study the transmission performance attenuation of the double layer FSS configuration. The numerical analysis model for ISD and UAE was established and also was used to simulate the ring unit cell FSS transmission performance by the finite element and periodic moment methods. The double layer ring aperture FSS configuration designed was used as the numerical model. As a result of the numerical analysis, it is shown that both ISD and UAE produce insertion transmission loss (ITL) and insertion phase distortion (IPD) directly. Furthermore, ISD results in more loss of the amplitude of the transmitted signal for the FSS than UAE. It is significant for the designer of the multiplayer FSS to assign the fabricated error of the FSS dielectric layers. The UAE introduces the insertion phase variation badly.