The social capital of the NGO is composed of structure, cognition, and relationship. Regarding prevention and control of HIV/AIDS, the higher-level relational dimension social capital is the main factor that influences the development of NGOs. The social capital of the structure dimension and the cognition dimension is the external resource acquisition channel of the organizations, meanwhile it can promote the generation of social capital of relational dimension. Through comprehensive development and utilization of three-dimensional social capital, it shall form the inherently positive interaction of social capital, strengthen the trust and cooperation among the members of the non-governmental organizations and between the organizations and the main body of external network to achieve collective action, and promote the sustainable development of non-governmental organizations.