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Fecal samples collected from domestic animals and wildlife along the central California coast were screened to (i) compare the prevalence and associated risk factors for fecal shedding of<jats:named-content content-type=\"genus-species\">Cryptosporidium<\/jats:named-content>and<jats:named-content content-type=\"genus-species\">Giardia<\/jats:named-content>species parasites, (ii) evaluate the relative importance of animal host groups that contribute to pathogen loading in coastal ecosystems, and (iii) characterize zoonotic and host-specific genotypes. Overall, 6% of fecal samples tested during 2007 to 2010 were positive for<jats:named-content content-type=\"genus-species\">Cryptosporidium<\/jats:named-content>oocysts and 15% were positive for<jats:named-content content-type=\"genus-species\">Giardia<\/jats:named-content>cysts. Animal host group and age class were significantly associated with detection of<jats:named-content content-type=\"genus-species\">Cryptosporidium<\/jats:named-content>and<jats:named-content content-type=\"genus-species\">Giardia<\/jats:named-content>parasites in animal feces. Fecal loading analysis revealed that infected beef cattle potentially contribute the greatest parasite load relative to other host groups, followed by wild canids. Beef cattle, however, shed host-specific, minimally zoonotic<jats:named-content content-type=\"genus-species\">Cryptosporidium<\/jats:named-content>and<jats:named-content content-type=\"genus-species\">Giardia duodenalis<\/jats:named-content>genotypes, whereas wild canids shed potentially zoonotic genotypes, including<jats:named-content content-type=\"genus-species\">G. duodenalis<\/jats:named-content>assemblages A and B. 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