A grouping process through the similarity comparison is required to effectively classify and respond a malicious code. When we have a use of the past similarity criteria to be used in the comparison method or properties it happens a increased problem of false negatives and false positives. Therefore, in this paper we apply to choose variety of properties to complement the problem of behavior analysis on the heuristic-based of 2nd step in malicious code auto analysis system, and we suggest a similarity comparison method applying AHP (analytic hierarchy process) for properties weights that reflect the decision-making technique. Through the similarity comparison of malicious code, configured threshold is set to the optimum point between detection rates and false positives rates. As a grouping experiment about unknown malicious it distinguishes each group made by malicious code generator. We expect to apply it as the malicious group information which includes a tracing of hacking types and the origin of malicious codes in the future.