In order to strengthen the ecological civilization construction, this article has identified three levels of comprehensive evaluation index system of ecological civilization, the first level was divided into the three indicators, the second level was divided into nine indicators, the third level was divided into thirty-eight indicators on the basis of comprehensive analysis of existing ecological civilization connotation and relevant indicator system. By using expert scoring method, the first grade indexes, second grade indexes and third grade indexes were given corresponding weights. Index weight showed that, the dependence degree was between ecological civilization construction and each index, while economic development was still the core and key of ecological civilization construction. In addition, according to the actual situation in different functional areas, the indicators and corresponding weights needed to be adjusted in different regions to get closer to the local development orientation. The end result would provide the basis for the evaluation index design and measurement.