As an economic main body in a certain social state, the behavior selection of farmers and governments is the result of comprehensive consideration of price rationality and tool rationality. The analysis based on the sampling survey in Guangxi rural area finds that the traditional ideas such as “some farmers hating to leave one’s native land”, “resetting and returning to the roots” and so on decrease the quitting desire of the homestead of some agricultural transfer populations (especially old people), that the quitting desire of the homestead for the agricultural transfer populations who have weaker stability and security of production and living in the cities is lower, and that some agricultural transfer populations are unwilling to quit their homestead because they can not ensure their long-term benefit. As a result, in the one hand, local governments should uphold the value orientation of “people-centered” and “development and enlargement of collective economy”, actively boost the institutional reform of rural homestead under the principle of “volunteer and paid”, and guide the farmers to reasonably quit their homestead by effectively using collective land to demonstrate individual interests, collective interests and social interests. In another hand, local governments should stick to the tool rationality of “acting based on governmental capacity”, “acting based on proper time and reality” and “acting by many ways” and orderly promote the quitting work of rural homestead by not only using compensation standard to try to satisfy the real needs of the farmers but also continuing to raise their quality of production and living after the farmers quit the homestead.