The black soil in Jilin Province, famous for providing significant amount of commodity grain to entire China, had already begun to regress to disappear on different degrees. To study the structure degradation of black soil in Jilin Province, We used SPSS and matlab programming on data information processing, thirty indexes were chosen, factor analysis on twenty-three samples from different sites and depths in Jilin Province was carried out, and dynamic clustering analysis taking the score of main factor as the variable was performed in turn. Combining them together, as a result, then the degradation mechanism was evaluated and classified. The results showed that eight factors from thirty indexes were found as the principal factors by factor analysis. By dynamic clustering analysis, the areas where twenty-three samples came from could be classified into three types: high degradation, medium degradation and light degradation. Finally, the differences among index scores were analyzed respectively, and reasonable suggested measures to prevent the black soil degradation were stated.