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In this paper, we propose a new algorithm for introducing Coarray Fortran (CAF) into a program that dynamically analyzes the frequency domain in soil–structure interactions. This was implemented in KIESSI-3D, which is frequency domain soil-structure interaction analysis computer code based on finite and infinite element techniques, and the performance of analysis speed based on the number of images (or coarrays) and cores per image was evaluated. For the performance evaluation, we used examples of full-scale nuclear power plant buildings with a shallow foundation model as well as a deep foundation model. In terms of analysis speed, the new KIESSI-3D improved the analysis speed by an average of 2.78 times for the shallow foundation problem and 2.69 times for the deep foundation problem, compared with the existing KIESSI-3D, because of the new algorithm and CAF. Further, as the number of cores and the internal memory size in the computer systems increased, the efficiency of also parallel processing increased.