Chengdu-Chongqing Economic Zone (CCEZ) is located in the second step of the upper reach of the Yangtze River, China. It is characterized by a vitally ecological barrier for maintaining ecological security of the middle and lower reach of the Yangtze River. Identifying the ecological security pattern (ESP) of the CCEZ and their functional problem are thus in urgent needs. This work used "source-corridor" method for identifying ESP of the CCEZ. The method consisted of three steps:identifying ecological sources, setting resistance surface, and extracting ecological corridor. Firstly, three major ecosystem service functions, namely soil conservation, habitat maintenance, and water yield service, were selected as evaluation indicators for recognizing ecological sources of the CCEZ. Then the resistance surface of the CCEZ was generated in a traditional way with carefully considering of land use types and socio-economic factors. Lastly, the ecological corridors were extracted by using the least cumulative resistance model applied to the resistance surface. Thus, the ecological security pattern was identified with the extracted ecological sources and corridors. Finally, the major problems for functioning the ecological security pattern was recognized and the corresponding suggestions for solving such problems were proposed as well. The main results were as follows. (1) There were 507 ecological sources in the CCEZ with a total area of 67191 km² and were mainly distributed in the mountainous areas in the east, west and south of the CCEZ. (2) With respect to the ecological security pattern, it was generally characterized by a "three wings with multiple arises" which refered to the spatial distribution of the identified ecological sources and corridors. (3) The currently ecological security pattern of the CCEZ had four main problems need to be paid attention:the spatial distribution of ecological sources were uneven, the ecological sources were in fragmentation patterns, many ecological sources were in conflict with human activities spaces, and many ecological corridors were fragile. Therefore, the reasons behind these weaknesses were discussed and the corresponding improvement strategies were suggested in this paper. The findings of this work is expected to be helpful for providing a guidance for planning land use of CCEZ in the future.