Major category-based admission and cultivation is a new mode of high education of China, and it challenges the teaching of previous basic courses. This paper summarizes the major problems encountered in teaching of Physical Geology for the category of Earth System Science and Environment of Nanjing University, and introduces our solutions for reforming and refining teaching and the practice result in the past several years. The purpose is to cultivate high level talents in Earth Sciences satisfying the standards of wide academic vision, solid professional competence, highly capable performance and qualified original innovation.