With the expanding scale of higher education, colleges and universities are under enormous finan-cial pressure; parents and students have to bear a heavy economic burden caused by rising tuition. How to evaluate the ability to fulfill the mission of a university in the knowledge economy era has become an urgent issue, which needs to be carefully considered. University administrators, parents and students are eager to know whether the current input and output match or not. In this article, samples of provincial Colleges and Universities are selected as research subjects, Draft’s (2008) Systems Theory is used as the theoretical framework for determining our evaluation indexes. Fol-lowed by data programming, and according to the results obtained, current non-effective deci-sion-making units and effective decision making units are located. Causes of non-effective units are analyzed. Ideas and countermeasures to solve the non-effective decision-making units are proposed. The purpose of this evaluation is not limited to simply evaluate non-effective and effective decision-units among these universities. It is to discover problems with university education as-sessment, and propose appropriate solutions for our universities to further improve their work on scientific and rational basis. It is our hope that colleges and universities are able to have a more healthy and higher efficient development.