Oct 30, 2026

Rising Tides and Shifting Habitats: Modeling the Future of Morro Bay’s Tidal Marsh

The Morro Bay estuary supports a rich network of marshes, eelgrass beds, mudflats, and dunes that provide essential habitat while also supporting fisheries, recreation, and protection of coastal communities. Rising seas pose a growing threat to the estuary with projections of more than three feet of sea level rise (SLR) by 2100. To better understand the risk of SLR, the Estuary Program partnered with the U.S. Geological Survey (USGS) on a two-year habitat vulnerability study. 

Visit Our StoryMap Here! 

Tidal marsh habitat along South Bay Boulevard. Tidal marshes help buffer infrastructure from the impacts of coastal storms.

About the Study

The Estuary Program and USGS collected robust field data and developed a hydrodynamic model, WARMER-Coast, to assess how marshes and adjacent habitats may respond to various sea level rise rates and sediment scenarios. The study aimed to estimate future SLR rates, identify areas and timing of predicted habitat change, and evaluate potential management actions to support habitat resilience.  

In addition to a formal report, Estuary Program and project partners created an interactive StoryMap communication tool in both English and Spanish to summarize the results. 

Modeling Sea Level Rise

Staff collected field data to calibrate an innovative WARMER-Coast Model used to identify areas of the estuary that are vulnerable to SLR.

Data collection focused on how quickly sediment is accumulating in the estuary to help determine how long habitats can naturally keep pace with sea level rise before management action is needed to minimize habitat change. 

USGS used the model to evaluate five sea level scenarios: low (0.6 ft), intermediate low (1.2 ft), intermediate (2.8 ft), intermediate high (4.5 ft), and high (6.3 ft) projections. 

The model also looked at varying levels of sediment delivery to the marsh: similar to recent sediment loading within the last two decades (historic), lower than present day with sediment loads representing a drier climate and lower peak river flows (dry), and higher than present day with sediment loads representing a wetter climate and higher peak river flows (wet).

The combination of a high tide and 100-year flood event brought more sediment into the estuary.

Key Takeaways from Vulnerability Modeling

According to the model, Morro Bay’s marsh is more resilient in the near term than many other estuary systems in California, given projected sediment inputs to the marsh. The majority of Morro Bay’s current marsh would be resilient under low, intermediate-low, and intermediate sea level rise scenarios through 2070. 

The year 2080 is a turning point for the resiliency of Morro Bay estuary habitats, when marsh habitats begin to convert to mudflat habitat under intermediate sea level rise scenarios. This is when the sea level rise rate exceeds 12 millimeters per year, which is a key threshold for the marsh to keep pace with sea level rise. Under the low, intermediate-low, and intermediate sea level rise scenarios, the marsh is relatively resilient through 2100. 

By 2100, the model shows that 100 to 300 acres of current marsh habitat would convert to mudflat or open water under the intermediate to high sea level rise scenarios if no action is taken. The future of the marsh is highly dependent on what sea level rise trajectory we experience.

The graph above shows WARMER-Coast model output for the marsh area in acres over time until 2100. Each color is a different SLR scenario and the upper and lower bounds of the ribbon indicate different climate scenarios. Wet scenarios yield higher acreage because more sediment is added to the marsh, and dry scenarios yield less acreage because less sediment is added to the marsh. Results are preliminary and subject to change.

Exploring the Communication Tool

The StoryMap allows you to take a deeper dive into some of the data and map products of the project. Below are some sections of the StoryMap you can explore. 

Impact to Morro Bay Coastal Communities 

Coastal flooding extent from SLR will affect multiple locations that people love and frequent around the estuary. This section allows you to toggle between maps to compare sea level rise flooding extent during spring high tide conditions under intermediate (2.8 ft) and high (6.3 ft.) sea level rise scenarios by 2100 with historic sediment conditions.

Example of sea level rise flooding extent (in blue) at Sweet Springs Nature Preserve under intermediate (2.8 ft; on the left-side image) and high (6.3 ft.; on the right-side image) SLR scenarios. Results are preliminary and subject to change.

Data Collection 

This section allows you to learn more about the field data that informed and calibrated the SLR vulnerability model.

Click through this feature to learn more about field collection methods that were used to inform the WARMER-Coast model.

Habitat Resilience Modeling Results 

This section allows you to explore a map of potential changes to Morro Bay estuary habitats under one SLR and sediment scenario under various time horizons.

This feature allows you to zoom into habitat extent results of the WARMER-Coast model at various timescales under intermediate-high SLR and historic sediment levels. Results are preliminary and subject to change.

The future of the Morro Bay estuary habitat is still uncertain and highly dependent on what SLR trajectory we experience. The Estuary Program will work with partners to provide additional research and engagement needed with community members, regulators, and Tribes to inform climate adaptation actions as sea levels continue to rise. 

Explore the StoryMap