The Infrared Hyperspectral Atmospheric Sounder II (HIRAS-II) is the key equipment on Funyun-3E (FY-3E) satellite, which can realize vertical atmospheric detection, featuring hyper spectral, high sensitivity and high precision. To ensure its accuracy of detection, it is necessary to correlate their thermal models to in-orbit data. In this work, an investigation of intelligent correlation method named Intelligent Correlation Platform for Thermal Model (ICP-TM) was established, the advanced Kriging surrogate model and efficient adaptive region optimization algorithm were introduced. After the correlation with this method for FY-3E/HIRAS-II, the results indicate that compared with the data in orbit, the error of the thermal model has decreased from 5 K to within ±1 K in cold case (10℃). Then, the correlated model is validated in hot case (20℃), and the correlated model exhibits good universality. This correlation precision is also much superiors to the general ones like 3 K in other similar literature. Furthermore, the process is finished in 8 days using ICP-TM, the efficiency is much better than 3 months based on manual. The results show that the proposed approach significantly enhances the accuracy and efficiency of thermal model, this contributes to the precise thermal control of subsequent infrared optical payloads.