Throughout the developing world, resource-poor farmers (about 1.4 billion people) located in risk-prone, marginal environments, remain untouched by modern agricultural technology. A new approach to natural resource management must be developed so that new management systems can be tailored and adapted in a site-specific way to highly variable and diverse farm conditions typical of resource-poor farmers. Agroecology provides the scientific basis to address the production by a biodiverse agroecosystem able to sponsor its own functioning. The latest advances in agroecological research are reviewed in order to better define elements of a research agenda in natural resource management that is compatible with the needs and aspirations of peasants. Obviously, a relevant research agenda setting should involve the full participation of farmers with other institutions serving a facilitating role. The implementation of the agenda will also imply major institutional and policy changes