With the rapid development of Chinese economy, a large number of pollutants have entered the environment of agricultural producing areas and gradually exceeded its capacity limits, leading to substantial environmental problems and pollution incidents, as well as decline in output and quality of agricultural products, which has seriously impacts on the sustainable development of China’s agricultural production and rural economy. Urbanization in Southern China started early and developed rapidly, initially at the expense of the environment. Consequently, the problem of heavy metal pollution of soil becomes prominent and is aggravated by the widespread acid rain pollution in Southern China. This paper focuses on main agricultural producing areas along the Yangtze River and systematically discusses quality conditions of various environmental elements such as water, soil, and air. In addition, it investigates the causes of pollution from the aspects of natural factors and influences of human activities, and ultimately provides prevention and control strategies for the pollution, which can be of great significance in promoting the scientific nature of environmental pollution control in the agricultural producing areas in Southern China, ensuring agricultural sustainable development, quality safety of agricultural products, and ecological environment safety, and guaranteeing people’s health and safety.