Although malaria remains one of the leading causes of death in children globally, successful efforts at eradication and control have lowered the prevalence in many parts of the world. Fortunately, the use of rapid diagnostic tests for malaria (RDTs) at the point of care has made it possible to accurately diagnose this disease. However the use of these RDTs has made the role of the health worker more complex requiring the integration of this diagnostic test into their patient assessment and in the case of fever with a negative RDT requiring more complex diagnostic algorithms for correct treatment. Working with the Swiss Tropical Institute and Save the Children we have developed and tested a complex protocol incorporating use of RDT for all febrile children and further assessment of children with fever who do not have malaria. These protocols are available for use at both clinics and by community health workers.