Under the trend of classified management of private education，private schools need to innovate management mechanism system to adapt to the new development trend. This report starts with the introduction to the significance of management mechanism innovation in private schools and takes private colleges as the object of study to clarify the problems existing in the management mechanism of private colleges and universities and put forward the measures of improving the management mechanism of private colleges and universities from the aspects of perfecting the modern university system，defining the relationship between the interest subject and building up the classified management system.