Abstract Background Monitoring the prevalences of chronic diseases and their risk factors at the population level is important to support effective prevention measures, health service planning and health policy-making. The utilization of register information is cost-effective in population health monitoring, but the validity of information is important to assess. The aim of this study was to compare the information on most common chronic diseases and risk factors collected from a population-based Healthy Finland survey and national health registers. Methods The study population comprised of 4785 individuals aged 20 years or over from the nationally representative Healthy Finland Health Examination Survey conducted in 2023. Information on the most common chronic diseases were derived from both survey data (including measured and self-reported data) and the national registers. The prevalence in survey data were compared with prevalence in register data for those individuals who participated in the survey. Register data was examined for the previous five years and was obtained from the Care Register for Health Care and medical registers, depending on availability of data. Weighted prevalences were calculated taking into account the sampling design and non-response. Results For all examined risk factors and diseases, the prevalence was higher in survey data than in register data. The difference was the greatest for elevated blood pressure: the prevalence in survey data was 48.6% (95% CI 46.5, 50.7) versus 17.3% (15.6, 19.0) in register data. The prevalence of diabetes was 11.5% (10.4, 12.5) in survey and 6.9% (5.9, 7.9) in register data. For sleep apnea, the prevalence in survey data was 8.4% (7.4, 9.3) and 4.4% (3.7, 5.1) in register data. Conclusions Register-based information provides more reliable prevalences on diseases needing urgent treatment. Survey data brings out also previously unidentified diseases cases that do not show in registers. Key messages • Register data is cost-effective in health monitoring, but surveys are needed for monitoring risk factors. • Utilizing diverse data sources enhances getting reliable information to support decision-making.