Aggregation of microbes with particles can reduce the effectiveness of ultraviolet ͑UV͒ disinfection. This study evaluated the comparative impact of dispersed spores, dispersed spores mixed with clay particles ͑nonaggregated͒, spore-spore aggregates, and sporeclay aggregates on UV disinfection performance in simulated drinking waters. Aggregates were induced by flocculation with alum and characterized by particle size analysis ͑count, volume, and surface area͒ of dispersed and aggregated systems, scanning electron microscopy ͑SEM͒ and energy dispersive X-ray ͑EDX͒ analysis. It was concluded that spores within aggregates of the spore-clay system were protected from UV irradiation compared to nonaggregated spores and the difference between these systems was found to be statistically significant throughout the UV range tested. In addition SEM-EDX analysis suggested that aggregate composition is nonhomogeneous with respect to the ratio of spores and clay particles among aggregates. It was estimated that 30-50% of the spores in the aggregates tested were protected from UV irradiation.