On the basis of comparative analysis on the vegetable input-output efficiency of suburban and rural areas in 2011-2012, this paper made co-integration test, impulse response and variance decomposition for the vegetable input-output relationship of suburban areas in 1998-2012. Comparative analysis indicated that the vegetable input-output benefit of suburban area declines, while that of rural area rises; empirical analysis indicated that there is a long-term stable relationship between labor cost of vegetable planting and vegetable income and between material cost of vegetable planting and vegetable income, but the vegetable income itself has certain lag effect, followed by material cost, and the labor cost has minimum influence. Finally, it came up with recommendations for improving suburban vegetable input-output relationship, including improving vegetable input security mechanism, improving farmers’ quality and innovation ability, and increasing technological input.