Optimizing the path of livestock manure used for farmland is a hugely significant issue, which not only improves the utilization efficiency of manure but also reduces the cost of the transportation of manure. However, some factors such as different terrains and the density of surrounding farmland may lead to more difficulty in further improving the resource utilization rate. Therefore, this paper aims to establish a transport network optimization model for a complex livestock manure distribution scheme. Using basic information from livestock and poultry farms, cultivated land, water areas and forestland in Xinzhou District, Wuhan City, Hubei Province, the relationship between farmland and livestock farms is divided into farm-intensive and water-intensive farmland areas by using the Voronoi diagram subdivision method. Then, according to the supply–demand balance of manure and crop demand, an optimization model is proposed to discuss the manure return scheme for these two types of terrain. The results show that our model can help significantly improve manure utilization efficiency under different terrain situations, which is proposed comprehensively, considering the economic and environmental benefits.