The urban rail transit project has become one of the main infrastructure projects in China. As an important construction management mode, BOT mode has been used for the urban rail transit projects in China. There are some problems which bother BOT mode about urban rail transit project in recent years, so the applied research on BOT mode about urban rail transit project has very important realistic meaning for development and construction of infrastructure projects. Relevant theoretical foundations of are given first in the paper. Then according to the main problems of financing, construction and operation about BOT mode in urban rail transit project, the related countermeasures are put forward, such as absorbing private capital and foreign investment, strictly controlling the cost of construction by some means, changing the original management mode and exploring external benefit of urban rail transit project, and so on.