Increased resource-use efficiency is an emergent property of agroecological systems that carefully plan and manage diversity to create synergies between different system components. For example, a key efficiency challenge is that less than 50 percent of nitrogen fertilizer added globally to cropland is converted into harvested products and the rest is lost to the environment causing major environmental problems.

Agroecological systems improve the use of natural resources, especially those that are abundant and free, such as solar radiation, atmospheric carbon and nitrogen. By enhancing biological processes and recycling biomass, nutrients and water, producers are able to use fewer external resources, reducing costs and the negative environmental impacts of their use. Ultimately, reducing dependency on external resources empowers producers by increasing their autonomy and resilience to natural or economic shocks.

One way to measure the efficiency of integrated systems is by using Land Equivalent Ratios (LER). LER compares the yields from growing two or more components (e.g. crops, trees, animals) together with yields from growing the same components in monocultures. Integrated agroecological systems frequently demonstrate higher LERs.

Agroecology thus promotes agricultural systems with the necessary biological, socio-economic and institutional diversity and alignment in time and space to support greater efficiency.