Iron deficiency chlorosis (IDC) is a frequent problem throughout many areas of the United States where soils are high in calcium carbonate (CaCO3), including the Blackland Prairie regions of Mississippi. The main objectives of this study were to 1) determine the effects of seven different cropping systems on IDC visual symptomology and grain yield in rainfed soybeans grown in calcareous soils, and 2) evaluate the effects of soil water tension (SWT) on IDC. Rotating soybeans with corn produced significantly higher yields for both tolerant and susceptible soybean varieties. IDC symptomology was worse, and yields were lower in cropping systems with lower average SWT, or wetter soils, throughout the growing season. Last, this study evaluated the use of multispectral imagery and apparent soil electrical conductivity (ECa) to identify IDC-prone areas of a field for the site-specific implementation of management strategies that produced higher yields in the plot-scale study.