Malaria is one of the leading causes of deaths in Kenya. Malaria is a vector-borne disease caused by a parasite of the genus plasmodium. Complete eradication of malaria in the country has remained a problem. A lot of effort and resources has been put in the fight against malaria in developing countries which has led to underdevelopment and low human development index. Malaria burden affects the world’s poorest countries. About 90% of the malaria burden is reported in sub-Saharan Africa. The disease has led to high mortality cases in children and pregnant women. Despite the massive government eradication campaign, new and resurgent cases have been recorded. The specific objective was to determine the malaria risk factors and spatial distribution in Kenya. The 2015 malaria indicator survey data was used for the study. Demographic and social-economic factors were used as predictor variables. A generalized linear mixed model was used to determine the spatial variation and prevalence of malaria in Kenya. Demographic and social-economic factors were found to have significant impact on Prevalence of malaria in kenya. Most cases of malaria were reported in lake, western and coastal regions. The most prone areas were Kisumu, Homabay, Kakamega and Mombasa. There were less cases in central Kenya counties like Nyeri, Tharaka-Nithi with a significant number reported in arid and semi-arid regions of Northern-Kenya counties of Garissa, Mandera, Baringo. Rural population was more susceptible to malaria compared to those in urban areas. The odds of getting (verse not getting malaria) in places of residence increases by 1.32, which is estimated to .28, CIs 95% (1.01, 1.72), and a p-value .04. Malaria prevalence varied significantly from one region to another. The study established that Spatial autocorrelation exists among regions mostly due to weather patterns, geography, cultural practices and socio-economic factors.