An aerial view of a coastal city with a marina, a large body of water, and a peninsula with buildings.

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Our top choices for Mission Bay hotels

1. The Dana on Mission Bay

The Dana on Mission Bay
3.5 star property
Mission Bay
9.0 out of 10, Wonderful, (4,426 reviews)
"Loved our stay here!"
United States
elizabeth
The price is ¥24,677
¥32,780 total
includes taxes & fees
Sep 28 - Sep 29
The Dana on Mission Bay

2. San Diego Mission Bay Resort

San Diego Mission Bay Resort
4.0 star property
Mission Bay
8.6 out of 10, Excellent, (1,601 reviews)
"Wonderful place"
United States
Angela
The price is ¥40,331
¥54,481 total
includes taxes & fees
Sep 20 - Sep 21
San Diego Mission Bay Resort

3. Paradise Point Resort & Spa

Paradise Point Resort & Spa
4.0 star property
Mission Bay
8.8 out of 10, Excellent, (2,867 reviews)
"Great stay!"
United States
Raffi
The price is ¥33,057
¥46,126 total
includes taxes & fees
Oct 4 - Oct 5
Paradise Point Resort & Spa

4. 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, (1,639 reviews)
"Helpful staff, concierge, pools"
United States
Linda
The price is ¥30,568
¥43,264 total
includes taxes & fees
Sep 30 - Oct 1
Hyatt Regency Mission Bay Spa and Marina

5. 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
2.8 km from Mission Bay
9.2 out of 10, Wonderful, (1,320 reviews)
"Great place to stay. Great price always happy with our stay."
United States
Joshua
The price is ¥21,287
¥24,469 total
includes taxes & fees
Sep 27 - Sep 28
Hampton Inn & Suites by Hilton San Diego SeaWorld Near Old Town

6. Wyndham Garden San Diego Near SeaWorld

Wyndham Garden San Diego Near SeaWorld
3.0 star property
2.6 km from Mission Bay
7.4 out of 10, Good, (4,175 reviews)
"Great place to stay!"
United States
Nayla
The price is ¥14,587
¥16,767 total
includes taxes & fees
Sep 21 - Sep 22
Wyndham Garden San Diego Near SeaWorld

7. Hampton Inn & Suites San Diego Airport Liberty Station

Hampton Inn & Suites San Diego Airport Liberty Station
2.5 star property
5.3 km from Mission Bay
9.2 out of 10, Wonderful, (1,719 reviews)
"Loved the staff and location."
United States
David
The price is ¥28,845
¥33,156 total
includes taxes & fees
Sep 28 - Sep 29
Hampton Inn & Suites San Diego Airport Liberty Station

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

Holiday Inn Express San Diego - SeaWorld Area by IHG
2.5 star property
2.3 km from Mission Bay
8.8 out of 10, Excellent, (1,002 reviews)
"all good nice stay nice breakfast will revisit soon"
Canada
nishant
The price is ¥23,349
¥26,838 total
includes taxes & fees
Sep 21 - Sep 22
Holiday Inn Express San Diego - SeaWorld Area by IHG

9. Homewood Suites by Hilton San Diego Airport/Liberty Station

Homewood Suites by Hilton San Diego Airport/Liberty Station
3.0 star property
5.3 km from Mission Bay
9.4 out of 10, Exceptional, (1,687 reviews)
"Amazing place location and hotel staff were amazing."
United States
Orlyn
The price is ¥31,364
¥36,052 total
includes taxes & fees
Sep 28 - Sep 29
Homewood Suites by Hilton San Diego Airport/Liberty Station

10. 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, 3.1 km from Mission Bay
8.8 out of 10, Excellent, (1,507 reviews)
"great location, excellent hotel"
United States
Edward Palacios
The price is ¥20,092
¥23,095 total
includes taxes & fees
Sep 28 - Sep 29
Hilton Garden Inn San Diego Old Town/SeaWorld Area

11. Sheraton San Diego Resort

Sheraton San Diego Resort
4.0 star property
6 km from Mission Bay
8.6 out of 10, Excellent, (3,698 reviews)
"Beautiful resort."
United States
Rosemarie
The price is ¥25,960
¥37,611 total
includes taxes & fees
Sep 27 - Sep 28
Sheraton San Diego Resort

12. Comfort Inn Sea World Area

Comfort Inn Sea World Area
3.5 star property
2.9 km from Mission Bay
8.6 out of 10, Excellent, (4,103 reviews)
"Great location and friendly."
United States
Rick
The price is ¥17,696
¥20,340 total
includes taxes & fees
Sep 21 - Sep 22
Comfort Inn Sea World Area

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

Homewood Suites by Hilton San Diego Hotel Circle/SeaWorld Area
3.0 star property
4.2 km from Mission Bay
8.8 out of 10, Excellent, (1,716 reviews)
"It was a great stay!"
United States
Demetrius
The price is ¥25,071
¥28,818 total
includes taxes & fees
Sep 20 - Sep 21
Homewood Suites by Hilton San Diego Hotel Circle/SeaWorld Area

14. Town and Country San Diego

Town and Country San Diego
4.0 star property
5.2 km from Mission Bay
8.6 out of 10, Excellent, (1,888 reviews)
"Enjoyed our stay"
United States
Sol
The price is ¥32,512
¥42,672 total
includes taxes & fees
Sep 18 - Sep 19
Town and Country San Diego

15. Fairfield Inn & Suites San Diego Old Town

Fairfield Inn & Suites San Diego Old Town
3.0 star property
Old Town San Diego, 4.1 km from Mission Bay
8.8 out of 10, Excellent, (1,183 reviews)
"Overall, great place to stay."
United States
David
The price is ¥22,066
¥25,364 total
includes taxes & fees
Sep 27 - Sep 28
Fairfield Inn & Suites San Diego Old Town

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

Best Western Inn & Suites San Diego – Zoo/SeaWorld Area
2.5 star property
3.6 km from Mission Bay
8.0 out of 10, Very Good, (3,012 reviews)
"Great place to stay"
United States
Philomena
The price is ¥20,284
¥23,315 total
includes taxes & fees
Oct 1 - Oct 2
Best Western Inn & Suites San Diego – Zoo/SeaWorld Area

17. Old Town Inn

Old Town Inn
2.5 star property
3.5 km from Mission Bay
9.0 out of 10, Wonderful, (1,974 reviews)
"Great place to stay!!!"
United States
Layne
The price is ¥21,117
¥24,232 total
includes taxes & fees
Sep 15 - Sep 16
Old Town Inn

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

Holiday Inn Express San Diego Airport - Old Town by IHG
2.5 star property
4.8 km from Mission Bay
9.2 out of 10, Wonderful, (1,087 reviews)
"Amazing stay."
United States
Faleoalii Iereneo
The price is ¥22,120
¥25,426 total
includes taxes & fees
Sep 23 - Sep 24
Holiday Inn Express San Diego Airport - Old Town by IHG

19. GreenTree Inn San Diego Mission Bay

GreenTree Inn San Diego Mission Bay
2.5 star property
Pacific Beach, 3 km from Mission Bay
8.0 out of 10, Very Good, (2,362 reviews)
"Great location"
United States
Moises
The price is ¥15,220
¥17,496 total
includes taxes & fees
Sep 20 - Sep 21
GreenTree Inn San Diego Mission Bay

20. Heritage Inn San Diego

Heritage Inn San Diego
2.0 star property
2.2 km from Mission Bay
7.0 out of 10, Good, (1,965 reviews)
"Good for a few days trip"
United States
Kyle
The price is ¥9,677
¥11,122 total
includes taxes & fees
Sep 27 - Sep 28
Heritage Inn San Diego
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.

Where to stay in Mission Bay

Find the best Mission Bay areas and neighborhoods for the activities you enjoy most.

Downtown San Diego

Cultural and financial hub, Downtown San Diego boasts the Symphony, Opera, theaters, museums, and historic sites like Gaslamp Quarter. Enjoy diverse shops, dining, nightlife, and convenient public transport options.

Pacific Beach

Boasting a lively nightlife scene, Pacific Beach offers miles of sandy shores, a bustling 3.2-mile boardwalk, and attractions like Crystal Pier and Kate Sessions Park. Enjoy local shops, bars, and eateries along the vibrant walkway.

Gaslamp Quarter

Downtown San Diego's historic district boasts Victorian-era buildings, now housing vibrant restaurants, shops, and entertainment venues. Stroll from Broadway to Harbor Drive, and 4th to 6th Avenue, admiring the newly installed gaslamps at Market Street.

Mission Beach

Spanning nearly two miles of oceanfront, this sandbar community offers sunbathing, surfing, and beach volleyball, with nearby attractions like Belmont Park's Giant Dipper Roller Coaster and SeaWorld in Mission Bay Park.

Ocean Beach

Ocean Beach is known for its stunning beaches, and with sights like Ocean Beach and Dog Beach, you won't get bored spending a day wandering around this part of San Diego.

Top Mission Bay Hotel Reviews

Frequently asked questions

What is Mission Bay like?
You'll be sure to have fun visiting San Diego's Mission Bay neighborhood. Looking for sights you might find in a travel guide about Mission Bay? Consider a visit to Mission Bay while you're in the neighborhood.
What's a favorite hotel to stay in Mission Bay?
Based on our traveler 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 neighborhood include San Diego Mission Bay Resort and The Dana on Mission Bay.
How many hotels should I expect to find in Mission Bay?
If you're searching for places to stay in San Diego, Expedia has something to meet your needs with 46 Mission Bay hotels and other accommodations 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 prior to the accommodation's cancellation deadline, which is usually within 24-48 hours of your check-in date. If your reservation is non-refundable, you might be able to cancel it and be given a refund within a 24-hour period of your booking. Add your dates and click on "Search", then use the filter option "fully refundable" to view the best options available in Mission Bay.
Where can I learn more about changing or cancelling my trip to Mission Bay?
To find more details about updating your trip to Mission Bay or cancelling it, head over to our customer service page.
What is there to do around this San Diego neighborhood?
Enjoy a stroll along the shore at Mission and Pacific Beaches, Ski Beach, and Crown Point Shores while you're in Mission Bay. You could also plan a visit to Mission Bay or The Dana On Mission Bay, BW Premier Collection while you're in the neighborhood. Don't miss favorite 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, North Cove Beach and Marina Village Conference Center are also worth a stop.