Abstract Coastal wetlands are transitional ecosystems between land and sea. Participants of citizen science programs have detected frequent floods in wetlands, as well as small pools that appear and then disappear. Considering that it is not clear whether their main hydrologic drivers are of marine or continental origin, we studied the El Culebrón wetland located in the Chilean semi-arid zone. El Culebrón is strongly influenced by extreme rain events. This wetland also experiences seasonal changes in its water stage (WS). A high mean sea level agreed with 41% of the WS rises. High intensity storm surges coincided with 53% of WS peaks. A small tsunami in 2022 impacted the WS, and another very intense tsunami flooded it in 2015. An apparent diurnal cycle in the WS was discarded due to an instrumental artifact. The combination of the aforementioned factors provided an explanation for 91% of the WS rises. The probable and novel mechanism for sea level and storm surge influence on WS is the formation of a sand barrier between the coastal lagoon and the sea. As a whole, El Culebrón receives varied influences from both the sea and the mainland, but it seems to be more dependent on freshwater sources.