By integrated management system (IMS) based on integrated main indicators (IMI), the quality of health, safety and environmental management specifically for chemical industries was well increased. This study aimed to evaluate and compare integrated and efficient indicators in two chemical industries in Iran by health, safety, and environment (HSE) management system (MS). The integrated indicators were divided into HSE domains in the form of a questionnaire by proposed method and the weight of each of them was calculated from 101 features in the field. A list of criteria, sub-criteria, and integrated indicators was first prepared for assessing the performance of the HSE-MS system, and Delphi was finalised with the help of experts, and then the results were weighed by ANP and DEMATEL methods for two companies. Finally, 101 integrated and efficient indicators were extracted for performance evaluation to demonstrate the application of the DEMATEL, ANP method to select effective indicators in measuring HSE-MS performance in two chemical industries. In this study, the mean scores per weight of HSE indicators for chemical industries A and B increased from 2.38 to 2.79 and 1.84 to 2.056 in the beginning of 2017 up to the end of 2018. The mean score of HSE indicators for companies A and B were archived (2.65 and 2.93) and (1.95 and 2.16), respectively, in the spring/winter of 2017 and 2018. So, HSE-MS and IMS help chemical industries to improve HSE and management systems to achieve high-quality industry in different options, especially in human sources. Although in this study all trends of HSE indicator had a moderate phase with positive rate from spring 2017 up to winter 2018 for two companies A and B but company B moved slowly as compared to company A.