Ensuring sustainable crop production is a great challenge due to high demand of food production in a changing climate to feed the ever-increasing population. Another greater challenge for high crop production with less environmental cost is the optimal management of agricultural inputs such as fertilizers, manure and irrigation water. The traditional fertilization, manure application and irrigation are implemented at uniform rate over the entire field area, which results in over- and under-applications at different parts of a field having different fertility and water holding capacity. The consequences are poor crop performance and yield, waste of resources and increase of environmental contamination by agrochemicals. Variable rate (VR) application is assumed as the best approach for managing these resources for higher crop production with less water, manure and fertilizer use. This is due to the fact that the right type, and amount of input are applied in the right place and time, according to the crop needs. The aim of present study is to investigate the potential of combining VR manure application with variable rate fertigation to increase the crop yield, and reduce environmental footprint. The combined approach will be developed using novel soil sensing, modelling and control technology. Impact of the combined VR solution on soil fertility attributes, microbial properties, crop productivity, and nutrient and water use efficiencies will be examined.