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Running Trails
United States
California
San Diego County

San Diego National Wildlife Refuge

The best running trails in San Diego National Wildlife Refuge

4.5

(9)

568

runners

75

runs

Jogging routes in San Diego National Wildlife Refuge traverse a diverse landscape spanning approximately 12,445 acres. The region features varied environments, including coastal sage scrub, chaparral, oak woodlands, and freshwater marshes. Riparian corridors along the Sweetwater River and wetlands near San Diego Bay offer distinct terrains. The refuge also encompasses open spaces and hills, providing a range of elevation changes for runners.

Best jogging routes in San Diego National Wildlife Refuge

  • The most popular jogging route is Rock House Trail…

Last updated: April 25, 2026

21

runners

#1.

Rock House Trail to Mother Miguel Mountain

7.00km

00:58

270m

270m

Embark on the Rock House Trail to Mother Miguel Mountain for a moderate jogging experience that rewards you with expansive views. This route covers 4.4 miles (7.0 km) and involves…

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Moderate

14

runners

14.9km

01:53

230m

230m

Jog the 9.3-mile Otay River Valley Trail, a moderate route through riparian ecosystems and eucalyptus groves, with birdwatching opportunitie

Moderate
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1

runners

Jog the easy 2.2-mile Sweetwater River Trail loop in San Diego National Wildlife Refuge, offering diverse scenery and wildlife.

Easy

Jog the challenging Mother Miguel Mountain and Rock House Trail Loop for panoramic views of San Diego and the Pacific Ocean.

Hard

Jog the 7.6-mile Lower Otay Reservoir: South Trail in Otay Lakes County Park, offering moderate terrain and scenic lake views.

Moderate
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Tips from the Community

mtm05005
June 5, 2025, Sweetwater Reservoir Trail System

The paths around Sweetwater Reservoir are primarily well-worn dirt, with most junctions clearly signed, though some of the less frequented routes can become overgrown. As you near San Miguel Mountain, the terrain becomes increasingly rugged and challenging, while open views of the reservoir and surrounding hills remain a constant backdrop.

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The Sweetwater River Trail is an 8-mile loop trail that runs along both sides of the river. The trail has some elevation gain, but this gives you nice views of the nearby mountains.

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This trailhead leads you up the Rock House Trail to Mother Miguel Mountain. It is a straightforward trail and one of the few in the area with some elevation gain.

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The Sweetwater River Trail includes a little bit of everything: singletrack, double-track, paved trails, dirt trails, bridges, boardwalks and everything in between. This is a great trail to run whether you are a seasoned runner or new to the sport. It isn't too steep (for the most part), and it follows along the river with some shade at times.

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The trails bordering Sweetwater Reservoir are mostly smooth dirt paths. Most of the intersections are marked, but the lesser used trails get overgrown at times. As you run closer to San Miguel Mountain, the trails get progressively rockier, steeper, and much more technical. All of the trails are pretty open with views of the reservoir and foothills nearly the entire time.

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This "Tiki Hut" is really just an awning with a bench overlooking Sweetwater Reservoir. There are a few other benches dispersed on the singletrack trails through the property.

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Lower Otay Reservoir sees a lot of visitors, but most trail users stick to the trails on the northern and western sides of the waters. This trail at Buschalaugh Cove is a great double-track trail for running and ends with a view over the reservoir towards San Miguel Mountain with Otay Mountain looming behind you.

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A lot of the trails in the San Diego National Wildlife Refuge are pretty smooth double-track trails, but this section of trail is here to test your technical running skills. It's super rocky and washed out in spots, coupled with being pretty dang steep. Whether going up or down this section, it proves to be real trail running.

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Frequently Asked Questions

How many running routes are available in the San Diego National Wildlife Refuge?

The San Diego National Wildlife Refuge offers a wide selection of over 70 running routes. These trails traverse diverse landscapes, providing options for various fitness levels and preferences.

What types of terrain can I expect on the jogging trails?

Joggers can experience a diverse range of environments, from coastal sage scrub and chaparral to oak woodlands and freshwater marshes. The refuge also features riparian corridors along the Sweetwater River and wetlands near San Diego Bay, offering varied natural settings and different types of terrain.

Are there any easy running routes suitable for beginners or a relaxed jog?

Yes, the refuge has 13 easy running routes. A great option for a relaxed jog is the Sweetwater River Trail loop, which is 2.2 miles (3.6 km) long and leads through a scenic riparian corridor.

What are some notable landmarks or natural features to see while running?

While jogging, you can encounter several interesting features. The Mother Miguel Mountain Summit Rockhouse offers panoramic views, and the Sweet Water River Trail provides access to beautiful riparian areas. You might also cross the Steele Canyon Bridge or explore parts of the Sweetwater Reservoir trail system.

Are there any challenging trails for experienced runners?

Absolutely. The refuge includes 20 difficult routes for those seeking a more strenuous workout. A challenging option is the Mother Miguel Mountain and Rock House Trail Loop, which covers over 10 km and involves significant elevation gain.

Can I bring my dog on the running trails?

The San Diego National Wildlife Refuge is generally welcoming to visitors, but specific rules regarding dogs on trails can vary. It's always best to check the official refuge guidelines before bringing your pet. You can find more information on the official website: fws.gov/refuge/san-diego.

Are there family-friendly running options in the refuge?

Many of the easier trails are suitable for families looking for a gentle run or walk. The diverse habitats and opportunities for wildlife observation can make for an engaging experience for all ages. Consider routes with less elevation change, such as the Sweetwater River Trail loop.

What do other runners say about the trails in San Diego National Wildlife Refuge?

The running routes in the San Diego National Wildlife Refuge are highly rated by the komoot community, with an average score of 4.5 stars. Runners often praise the diverse scenery, well-maintained trails, and the opportunity to experience nature away from urban environments.

Are there any loop trails for jogging?

Yes, the refuge offers several loop trails. A popular choice is the Sweetwater River Trail loop, which provides a convenient circular route through a riparian corridor.

What is the best time of year to go jogging in the refuge?

Given its location in coastal Southern California, the San Diego National Wildlife Refuge generally offers pleasant running conditions year-round. However, mornings and late afternoons are often ideal to avoid the midday sun, especially during warmer months. The varied habitats provide dynamic scenery throughout the seasons.

Is there parking available near the running trails?

While specific parking areas are not detailed in every route description, the refuge is designed for public access, and parking facilities are typically available at various trailheads and access points. It's advisable to check specific unit information on the official refuge website for detailed parking instructions.

Can I spot wildlife while running in the refuge?

Yes, the refuge is a sanctuary for a wide variety of wildlife, including endangered and threatened species. Joggers often enjoy birdwatching and may spot various species, especially in areas like the coastal wetlands and riparian corridors, adding an enriching element to their outdoor activity.

Are there any trails that follow a river or offer water views?

Yes, the refuge includes riparian corridors along the Sweetwater River, such as the Sweetwater River Trail loop. Additionally, sections of the San Diego Bay National Wildlife Refuge unit feature diverse wetlands and offer views of the bay, providing scenic water-side running experiences.

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