The national basic public health service project funds performance audit is based on the evaluation of the authenticity and compliance of the project funds, the project funds have a comprehensive audit of the effectiveness and economic.This paper according to the current national basic public health service project in the management and use of existing problems and combined with work experience, and actively explore the corresponding countermeasures and methods of audit, hope in order to basic public health services to carry out carry out performance audit of funds to promote the role of.