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El Niño Could Bring ‘Disruptive Coastal Flooding’ to Bay Area This Winter

Scientists warn the potential super El Niño could push Bay Area tides to record highs from Santa Cruz to Marin.
The Pacifica Municipal Pier in Pacifica on June 15, 2026, after structural damage forced its closure and the demolition of the Chit Chat Cafe. Experts say the brewing El Niño will likely mean unprecedented flooding in coastal cities. (Beth LaBerge/KQED)

Pacifica’s pier cracked. Parts of Marin County are underwater this week, thanks to the Bay Area’s highest-ever summer tides. And climate scientists expect coastal flooding to get worse this fall and winter, because of the potentially ‘Super’ El Niño brewing thousands of miles away.

Federal scientists are now sure El Niño will affect global weather patterns this year. And Daniel Swain, a climate scientist with UC Agriculture and Natural Resources, said on Tuesday there’s a 90% confidence level that a record-breaking El Niño event will occur, which could intensify storms, heat up ocean water off the California coast and temporarily raise sea levels. Swain said a wetter-than-normal winter is not guaranteed, but San Francisco Bay levels are “almost guaranteed” to be higher.

“That’s going to be a big concern this year, and it’s only going to grow as this El Niño event intensifies,” Swain said.

El Niño forms when tropical trade winds weaken or reverse, allowing warm ocean water near Asia to move toward the Pacific Coast. This process heats the eastern Pacific Ocean and can alter the jet stream. As a result, it can lead to a stormier winter in California. It can also disrupt the ocean’s upwelling — a natural process that drives cool, nutrient-rich water to the surface — raising local ocean temperatures and affecting marine life.

The Pacific Ocean has risen by about 8 inches since the 1880s. State scientists project an additional rise of over a foot by 2050, and in worst-case scenarios, 6 feet or more by the end of the century.

“El Niño is going to temporarily elevate that baseline even further,” Swain said. “There’s significant potential that the combination of accumulated global warming plus a very strong to maybe even historic El Niño event in its own right could cause big problems.”

A home along Golden Hind Passage is raised above its foundation in Corte Madera on June 15, 2026. Some homeowners are elevating structures as part of long-term efforts to adapt to recurring tidal flooding. (Gustavo Hernandez/KQED)

Swain said El Niño could temporarily raise sea levels on average by “6 inches to 2 feet in elevation for the rest of the year.” Storms and onshore winds can also raise sea levels by a foot or two.

Though that increase may not seem like a lot, combined, Swain said they could add up to a “net increase in sea level during the largest coastal flood events that’s comparable to mid-chest height on the average person.”

This level of inundation could pose a major risk when natural high tides and storms occur in tandem. Swain said elevated sea levels will be a big deal for places that routinely flood across Northern California, including coastal cities like Pacifica, San Francisco, Santa Cruz and parts of Marin County along the bayshore.

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“All of a sudden, we kind of get to the point where 2 to 3 plus feet of temporary sea elevation is possible near California later this year during a major storm event and at least a foot or two the rest of the time,” Swain said. “We may see all-time record high water levels during storm events or king tides this year.”

He adds that this advance notice should prompt local governments to prepare for the coming waves and high tides, especially agencies that run low-lying highways and communities that flood during extreme high tides and storm events.

“We’re going to have problems,” Swain said. “There is some time to do some mitigation. You have several months at least before the most disruptive coastal flooding is likely to arrive.”

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