During the period February to June 2020, heavy rainfall caused increases in levels and flooding in many lakes in East Africa . This coincided with the COVID-19 pandemic . These calamities affected ecosystems and livelihoods, especially of fishers who depend on fisheries as their only source of livelihood . This study examined the effects of COVID-19 and flooding on the major inland capture fisheries in Kenya to illustrate the effect of such calamities on vulnerable communities to guide interventions . Socioeconomic data were collected across the fish value chains during the peak of COVID-19 pandemic and flooding in Kenya from May to early June 2020 . The measures put in place to contain COVID-19 pandemic notably dusk to dawn curfew (66 %) and lock-downs (28 %) in major cities that act as main fish markets were cited as the main factors that influenced fishing and fishing trade . Negative consequences reported included livelihood losses from the COVID-19 pandemic . Reduced fishing time and trips as well as a decline in consumables such as boat fuel resulted in low fish catches . Although COVID-19 pandemic affected livelihoods, the fish stocks benefited from reduction in fishing effort . Similarly flooding led to livelihood and material losses but positively impacted on stocks through expansion of fish breeding and nursery areas . The respondents recommended that governments should have disaster preparedness programs in place to address such calamities . There is also need for more detailed research on calamities that are increasing in frequency to provide information and data to guide policy and interventions.