Search Hotels in Mission Bay, San Diego

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Our top choices for Mission Bay hotels

A poolside view with a lounge chair, a towel, a tray with a drink and a coconut, and a pool with palm trees in the background.

1. San Diego Mission Bay Resort

San Diego Mission Bay Resort
4.0 star property
Mission Bay
8.6 out of 10, Excellent, (1,669 reviews)
"Amazing rooms and service!!"
United States
Aaroosh
The price is £201
includes taxes & fees
29 Nov - 30 Nov
San Diego Mission Bay Resort
A resort pool with a lazy river, palm trees, and a view of the ocean.

2. Hyatt Regency Mission Bay Spa and Marina

Hyatt Regency Mission Bay Spa and Marina
4.0 star property
Mission Bay
8.4 out of 10, Very good, (1,635 reviews)
"Beautiful and the breakfast was delicious!"
United States
Megan
The price is £182
includes taxes & fees
1 Dec - 2 Dec
Hyatt Regency Mission Bay Spa and Marina
A pool area with a hot tub, lounge chairs, and umbrellas.

3. The Dana on Mission Bay

The Dana on Mission Bay
3.5 star property
Mission Bay
9.0 out of 10, Wonderful, (4,490 reviews)
"Very nice stay"
United States
Heather
The price is £166
includes taxes & fees
30 Nov - 1 Dec
The Dana on Mission Bay
An aerial view of a resort with a central swimming pool, palm trees, and a view of the ocean and beach.

4. Paradise Point Resort & Spa

Paradise Point Resort & Spa
4.0 star property
Mission Bay
8.8 out of 10, Excellent, (2,971 reviews)
"Loved staying at Paradise Point!"
United States
victor
The price is £198
includes taxes & fees
5 Dec - 6 Dec
Paradise Point Resort & Spa
A reception desk with a wooden panel wall, a crescent-shaped logo, and a digital payment terminal.

5. Comfort Inn San Diego - SeaWorld Area

Comfort Inn San Diego - SeaWorld Area
3.5 star property
1.7 mi from Mission Bay
8.6 out of 10, Excellent, (4,288 reviews)
"Excellent stay"
United States
Dharmeshkumar
The price is £87
includes taxes & fees
1 Dec - 2 Dec
Comfort Inn San Diego - SeaWorld Area
A hotel with a central courtyard, palm trees, and a fountain.

6. Hilton Garden Inn San Diego Old Town/SeaWorld Area

Hilton Garden Inn San Diego Old Town/SeaWorld Area
3.0 star property
Old Town San Diego, 1.9 mi from Mission Bay
8.8 out of 10, Excellent, (1,563 reviews)
"Great stay."
United States
Christopher
The price is £120
includes taxes & fees
15 Nov - 16 Nov
Hilton Garden Inn San Diego Old Town/SeaWorld Area
A living room with a large window, a flat-screen TV, and a patterned rug.

7. GreenTree Inn San Diego Mission Bay

GreenTree Inn San Diego Mission Bay
2.5 star property
Pacific Beach, 1.9 mi from Mission Bay
8.0 out of 10, Very good, (2,444 reviews)
"Great stay!"
United States
Arman
The price is £96
includes taxes & fees
11 Nov - 12 Nov
GreenTree Inn San Diego Mission Bay
A spacious room with large windows, modern furniture, and decorative lighting fixtures.

8. Wyndham Garden San Diego Near SeaWorld

Wyndham Garden San Diego Near SeaWorld
3.0 star property
1.6 mi from Mission Bay
7.4 out of 10, Good, (4,176 reviews)
"great stay"
United States
Sarah
The price is £82
includes taxes & fees
15 Nov - 16 Nov
Wyndham Garden San Diego Near SeaWorld
A multi-story hotel with a lobby, outdoor seating, and a well-lit entrance.

9. The Alcala Hotel Mission Valley/Seaworld

The Alcala Hotel Mission Valley/Seaworld
2.5 star property
2.2 mi from Mission Bay
8.0 out of 10, Very good, (971 reviews)
"Great stay !"
United States
David
The price is £62
includes taxes & fees
6 Dec - 7 Dec
The Alcala Hotel Mission Valley/Seaworld
A hotel entrance with a stone archway, a reception desk, and potted plants.

10. Holiday Inn Express San Diego Airport - Old Town by IHG

Holiday Inn Express San Diego Airport - Old Town by IHG
2.5 star property
3 mi from Mission Bay
9.2 out of 10, Wonderful, (1,100 reviews)
"Great family hotel. Simple and clean yummy breakfast inexpensive and perfect for our short stay in sd"
United States
Alejandra
The price is £116
includes taxes & fees
10 Nov - 11 Nov
Holiday Inn Express San Diego Airport - Old Town by IHG
An outdoor patio area with tables and chairs, string lights, and a building with balconies.

11. Fairfield Inn & Suites San Diego Old Town

Fairfield Inn & Suites San Diego Old Town
3.0 star property
Old Town San Diego, 2.6 mi from Mission Bay
8.8 out of 10, Excellent, (1,224 reviews)
"great Breakfast and Great Location"
United States
Daniel
The price is £105
includes taxes & fees
15 Nov - 16 Nov
Fairfield Inn & Suites San Diego Old Town
A pool area with a hot tub, lounge chairs, and umbrellas.

12. Heritage Inn San Diego

Heritage Inn San Diego
2.0 star property
1.4 mi from Mission Bay
7.0 out of 10, Good, (2,162 reviews)
"Room was clean and the man at check in was nice and polite"
United States
Michelle
The price is £54
includes taxes & fees
7 Dec - 8 Dec
Heritage Inn San Diego
A hotel breakfast area with a long counter displaying various food items, including fruits, pastries, and a coffee station.

13. Best Western Inn & Suites San Diego – Zoo/SeaWorld Area

Best Western Inn & Suites San Diego – Zoo/SeaWorld Area
2.5 star property
2.3 mi from Mission Bay
8.0 out of 10, Very good, (3,103 reviews)
"Clean and spacious room, good breakfast, nice staff."
United States
Antonia
The price is £101
includes taxes & fees
8 Nov - 9 Nov
Best Western Inn & Suites San Diego – Zoo/SeaWorld Area
A modern hotel with a courtyard featuring outdoor seating, a chess table, and a well-maintained lawn.

14. Hampton Inn & Suites by Hilton San Diego SeaWorld Near Old Town

Hampton Inn & Suites by Hilton San Diego SeaWorld Near Old Town
4.0 star property
1.8 mi from Mission Bay
9.2 out of 10, Wonderful, (1,480 reviews)
"The breakfast was amazing!"
United States
David
The price is £130
includes taxes & fees
15 Nov - 16 Nov
Hampton Inn & Suites by Hilton San Diego SeaWorld Near Old Town
A modern dining area with multiple tables and chairs, large windows, and artwork on the walls.

15. Comfort Inn San Diego Old Town

Comfort Inn San Diego Old Town
2.5 star property
Old Town San Diego, 2.5 mi from Mission Bay
8.2 out of 10, Very good, (2,076 reviews)
"A great stay and very close to the airport for those frequent trips"
United States
Ernesto
The price is £94
includes taxes & fees
29 Nov - 30 Nov
Comfort Inn San Diego Old Town
A building with a "Bienvenidos" sign, palm trees, and a well-maintained garden.

16. Old Town Inn

Old Town Inn
2.5 star property
2.2 mi from Mission Bay
9.0 out of 10, Wonderful, (2,062 reviews)
"Wonderful place to stay!!"
Canada
Anne
The price is £112
includes taxes & fees
10 Nov - 11 Nov
Old Town Inn
A balcony with a metal table and chair, a wooden panel wall, and a view of a parking area with a sign reading "Sands of Jolla".

17. The Sands of La Jolla

The Sands of La Jolla
2.5 star property
3.5 mi from Mission Bay
9.2 out of 10, Wonderful, (952 reviews)
"Great location and the staff is really helpful."
United States
george
The price is £100
includes taxes & fees
8 Nov - 9 Nov
The Sands of La Jolla
An outdoor seating area with fire pits, lounge chairs, and a modern building in the background.

18. Homewood Suites by Hilton San Diego Hotel Circle/SeaWorld Area

Homewood Suites by Hilton San Diego Hotel Circle/SeaWorld Area
3.0 star property
2.6 mi from Mission Bay
8.8 out of 10, Excellent, (1,752 reviews)
"Clean room, very friendly staff, great breakfast."
United States
Edith
The price is £121
includes taxes & fees
1 Dec - 2 Dec
Homewood Suites by Hilton San Diego Hotel Circle/SeaWorld Area
A hotel lobby with a waterfall feature, outdoor seating area, and multiple floors with balconies.

19. Crowne Plaza San Diego - Mission Valley by IHG

Crowne Plaza San Diego - Mission Valley by IHG
3.5 star property
2.5 mi from Mission Bay
8.4 out of 10, Very good, (1,475 reviews)
"Had a good stay"
United States
Yesenia
The price is £98
includes taxes & fees
23 Nov - 24 Nov
Crowne Plaza San Diego - Mission Valley by IHG
A spacious kitchen with a central island, wooden ceiling, and modern lighting fixtures.

20. Holiday Inn Express San Diego - SeaWorld Area by IHG

Holiday Inn Express San Diego - SeaWorld Area by IHG
2.5 star property
1.4 mi from Mission Bay
8.8 out of 10, Excellent, (1,008 reviews)
"Great place to rest your head"
United States
Kenneth
The price is £109
includes taxes & fees
15 Nov - 16 Nov
Holiday Inn Express San Diego - SeaWorld Area by IHG
Lowest nightly price found within the past 24 hours based on a 1 night stay for 2 adults. Prices and availability subject to change. Additional terms may apply.
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Compare popular hotels in Mission Bay

Property
Property class
Guest rating
Breakfast included
Pool
Spa
Pet-friendly
WiFi included
A pool area with a hot tub, lounge chairs, and umbrellas.
The Dana on Mission Bay
3.5 star property
9.0
Wonderful
4,490 reviews
View
An aerial view of a resort with a central swimming pool, palm trees, and a view of the ocean and beach.
Paradise Point Resort & Spa
4.0 star property
8.8
Excellent
2,971 reviews
View
A poolside view with a lounge chair, a towel, a tray with a drink and a coconut, and a pool with palm trees in the background.
San Diego Mission Bay Resort
4.0 star property
8.6
Excellent
1,669 reviews
View
A resort pool with a lazy river, palm trees, and a view of the ocean.
Hyatt Regency Mission Bay Spa and Marina
4.0 star property
8.4
Very good
1,635 reviews
View
A spacious lobby with a modern design, featuring a large seating area, a reception desk, and large windows offering views of the city.
Ayres Hotel San Diego South - Chula Vista
3.0 star property
9.8
Exceptional
1,029 reviews
View

Where to stay in Mission Bay

Find the best Mission Bay areas for the activities you enjoy most.
A large stadium with the sign "Cobo Park" and palm trees around it.

Downtown San Diego

Known for its fantastic nightlife, fascinating museums and beautiful waterfront views, there's plenty to explore in Downtown San Diego. Top attractions like Petco Park and Port of San Diego are major draws. Catch the metro at Civic Center Station or Civic Center Station to see more of the city.

A pier extending into the ocean with buildings at the end, under a partly cloudy sky.

Pacific Beach

Relax in beachside cafés in the morning, surf clean breaks in the afternoon and dance with a youthful club crowd at night at this coastal San Diego strip.

A theater marquee with ornate designs and the name "Gaslamp Quarter".

Gaslamp Quarter

San Diego’s historic heart has shed its seedy past to emerge as one of the city’s premier dining, shopping and entertainment hubs.

A coastal cityscape with a long sandy beach, a pier, and dense urban buildings.

Mission Beach

If you're spending some time in Mission Beach, Mission Bay and Mission Beach are top sights worth seeing.

A coastal walkway with a statue, benches, and people.

Point Loma

Seaside views a bustling port and top sights from Marine Corps Recruit Depot to Shelter Island – discover Point Loma, a destination also famous for its island views.

Top Mission Bay Hotel Reviews

A pool area with a hot tub, lounge chairs, and umbrellas.
The Dana on Mission Bay

The Dana on Mission Bay

The Dana on Mission Bay
Mission Bay

10/10 Excellent

A really nice area to relax and hang around.
United Kingdom
Deividas
Reviewed April 29, 2026
The Dana on Mission Bay

Frequently Asked Questions

What is Mission Bay like?

You'll be sure to have fun exploring San Diego's Mission Bay neighbourhood. Looking for sights you might find in a travel guide about Mission Bay? Consider a visit to Mission Bay while you're in the neighbourhood.

What's a favourite hotel to stay in Mission Bay?

Based on our traveller data, Paradise Point Resort & Spa is one of the top choices for your stay in Mission Bay. This resort is a short 1-minute walk from Mission Bay, and it offers a marina and 5 outdoor pools. Other good options for your stay in the neighbourhood include The Dana on Mission Bay and San Diego Mission Bay Resort.

How many hotels should I expect to find in the Mission Bay area?

If you're searching for places to stay in San Diego, Expedia has something to meet your needs with 37 Mission Bay hotels and other accommodation options to choose from.

If I need to cancel my hotel reservation in Mission Bay, will I receive a refund?

Yes, you'll find most room reservations are refundable provided that you cancel before the accommodation's cancellation deadline, which is usually within 24-48 hours of the scheduled arrival. If you booked a non-refundable reservation, you might be able to still cancel and be given a refund within a 24-hour period of your booking. Add your dates and click on "Search", then you can use the "fully refundable" filter to view top deals in Mission Bay.

What is there to do around this San Diego neighbourhood?

Enjoy a stroll along the shore at Ski Beach, Mission and Pacific Beaches and Crown Point Shores while you're in Mission Bay. You could also plan a visit to Mission Bay or North Cove Beach while you're in the neighbourhood. Don't miss favourite places to visit in the surrounding area, such as Mission Beach, Marine Corps Recruit Depot and Hotel Circle. When you're sightseeing in San Diego, The Dana On Mission Bay, BW Premier Collection and Marina Village Conference Center are also worth a stop.