In holographic data storage system, misalignment of optical components causes fluctuation of path and angle of laser. These phenomena generate data distortion like rotation, barrel, pincushion and mustache distortion, because holographic data storage system has very sensitive tolerance with incident angle of reference beam. Because it is difficult to align perfectly, data distortion occurs inevitably by misalignment. It is important to acquire accurate data page from holographic data storage system without distortion. In this paper, we propose intelligence compensation algorithm for data restoration in holographic data storage system. We used fuzzy system and sub-clustering algorithm to generate fuzzy rules for this compensation algorithm. This proposed algorithm acquires the value how much the data image has barrel distortion. With acquired data form this algorithm, data distortion can be compensated. Barrel image is used for this simulation and it shows good performance.