This dataset supports the manuscript titled "Prevalence and Determinants of Chronic Disease Multimorbidity in Eswatini: A Historical Baseline for Policy and Public Health Interventions." It provides de-identified individual-level data and summary tables derived from the World Health Survey (2002–2004) for Eswatini, including prevalence estimates and regression analysis of multimorbidity. The data offer an essential baseline for tracking non-communicable disease trends and informing health policy in Eswatini and similar low- and middle-income countries.