Find hotels in Mission Bay, San Diego

Start date: Check-in selected.
To Date
End date: Check-out

  • Change your mind

    Book hotels with free cancellation

  • Treat yourself

    Sign in to save 10% or more on thousands of hotels
    Sign in

  • Be picky

    Search almost a million properties worldwide

Check prices for these dates

Tonight
Dec 21 - Dec 22
Tomorrow
Dec 22 - Dec 23
Next weekend
Dec 26 - Dec 28
In two weeks
Jan 2 - Jan 4

Filter by

Guest rating
Guest rating
Star rating

Our top choices for Mission Bay hotels

2 outdoor pools, a heated pool, sun loungers
The Dana on Mission Bay

The Dana on Mission Bay

The Dana on Mission Bay
3.5 star property
Mission Bay
9.0 out of 10, Wonderful, (3933)
"Always love staying here. Staff was very courteous and the rooms very clean. "
United States
Eric
The price is NT$4,387
NT$5,674 total
includes taxes & fees
Dec 22 - Dec 23
The Dana on Mission Bay
5 outdoor pools, a heated pool, pool umbrellas, sun loungers
Paradise Point Resort & Spa

Paradise Point Resort & Spa

Paradise Point Resort & Spa
4.0 star property
Mission Bay
8.8 out of 10, Excellent, (2354)
"Great stay, top tier service and excellent customer care "
Canada
Meriem
The price is NT$4,083
NT$6,363 total
includes taxes & fees
Jan 11 - 2026/1/12
Paradise Point Resort & Spa
Outdoor pool, open 7:00 AM to 10:00 PM, cabanas (surcharge)
San Diego Mission Bay Resort

San Diego Mission Bay Resort

San Diego Mission Bay Resort
4.0 star property
Mission Bay
8.4 out of 10, Very Good, (1310)
"Room was super clean and updated, location up against the bay was perfect. We really enjoyed our stay and want to come back soon!"
United States
Haley
The price is NT$4,648
NT$6,766 total
includes taxes & fees
Jan 1 - 2026/1/2
San Diego Mission Bay Resort
3 outdoor pools, cabanas (surcharge), pool umbrellas
Hyatt Regency Mission Bay Spa and Marina

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, (1575)
"Loved our stay "
United States
Jeremy
The price is NT$4,119
NT$6,404 total
includes taxes & fees
Jan 3 - 2026/1/4
Hyatt Regency Mission Bay Spa and Marina
Terrace/patio
Embassy Suites by Hilton San Diego La Jolla

Embassy Suites by Hilton San Diego La Jolla

Embassy Suites by Hilton San Diego La Jolla
4.0 star property
11 km from Mission Bay
8.8 out of 10, Excellent, (1782)
"Good hot food!!"
United States
Cris
The price is NT$5,823
NT$6,693 total
includes taxes & fees
Jan 4 - 2026/1/5
Embassy Suites by Hilton San Diego La Jolla
Reception
Hampton Inn & Suites by Hilton San Diego SeaWorld

Hampton Inn & Suites by Hilton San Diego SeaWorld

Hampton Inn & Suites by Hilton San Diego SeaWorld
3.0 star property
2.8 km from Mission Bay
9.2 out of 10, Wonderful, (431)
"Clean rooms, friendly staff."
United States
KARLA
The price is NT$3,193
NT$3,670 total
includes taxes & fees
Jan 4 - 2026/1/5
Hampton Inn & Suites by Hilton San Diego SeaWorld
Lobby
Hampton Inn & Suites San Diego Airport Liberty Station

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, (1707)
"Excellent place "
Mexico
Rafael
The price is NT$4,801
NT$5,518 total
includes taxes & fees
Dec 28 - Dec 29
Hampton Inn & Suites San Diego Airport Liberty Station
Beach nearby
Inn By The Sea La Jolla

Inn By The Sea La Jolla

Inn By The Sea La Jolla
3.5 star property
9.1 km from Mission Bay
9.4 out of 10, Exceptional, (1743)
"Delightful stay. Perfect location. "
United States
Nicole
The price is NT$4,744
NT$5,453 total
includes taxes & fees
Dec 22 - Dec 23
Inn By The Sea La Jolla
View from room
Courtyard by Marriott San Diego Downtown Little Italy

Courtyard by Marriott San Diego Downtown Little Italy

Courtyard by Marriott San Diego Downtown Little Italy
4.0 star property
Little Italy, 8.1 km from Mission Bay
9.0 out of 10, Wonderful, (124)
"It was a nice place to stay at"
United States
Eric
The price is NT$3,729
NT$4,324 total
includes taxes & fees
Dec 25 - Dec 26
Courtyard by Marriott San Diego Downtown Little Italy
Free continental breakfast
Fairfield Inn & Suites by Marriott San Diego Pacific Beach

Fairfield Inn & Suites by Marriott San Diego Pacific Beach

Fairfield Inn & Suites by Marriott San Diego Pacific Beach
2.5 star property
Pacific Beach, 2.9 km from Mission Bay
9.0 out of 10, Wonderful, (807)
"good place to stay"
United States
Sisi
The price is NT$3,251
NT$3,737 total
includes taxes & fees
Dec 30 - Dec 31
Fairfield Inn & Suites by Marriott San Diego Pacific Beach
Terrace/patio
Empress Hotel of La Jolla

Empress Hotel of La Jolla

Empress Hotel of La Jolla
3.0 star property
9 km from Mission Bay
9.0 out of 10, Wonderful, (1000)
"Love staying here. It is very convenient to everywhere we need to go in the heart of La Jolla. The staff is friendly and the restaurant is the best!"
United States
Sharon
The price is NT$5,095
NT$6,401 total
includes taxes & fees
Dec 30 - Dec 31
Empress Hotel of La Jolla
Property grounds
The Inn at Sunset Cliffs

The Inn at Sunset Cliffs

The Inn at Sunset Cliffs
2.5 star property
Ocean Beach, 5.4 km from Mission Bay
9.2 out of 10, Wonderful, (1005)
"Great place beautiful view "
United States
Josue
The price is NT$6,186
NT$6,975 total
includes taxes & fees
Dec 22 - Dec 23
The Inn at Sunset Cliffs
Free buffet breakfast on weekends
Hampton Inn San Diego-Kearny Mesa

Hampton Inn San Diego-Kearny Mesa

Hampton Inn San Diego-Kearny Mesa
2.5 star property
9.8 km from Mission Bay
9.0 out of 10, Wonderful, (1000)
"It was a very nice stay "
United States
Douglas
The price is NT$3,280
NT$3,764 total
includes taxes & fees
Jan 18 - 2026/1/19
Hampton Inn San Diego-Kearny Mesa
Standard Room, 2 Queen Beds, Non Smoking, Microwave | Desk, blackout drapes, iron/ironing board, cribs/infant beds
Best Western Yacht Harbor Hotel

Best Western Yacht Harbor Hotel

Best Western Yacht Harbor Hotel
2.5 star property
5.6 km from Mission Bay
8.6 out of 10, Excellent, (1642)
"Good stay - went very smoothly"
United States
Georgia
The price is NT$3,153
NT$3,619 total
includes taxes & fees
Dec 22 - Dec 23
Best Western Yacht Harbor Hotel
Lobby sitting area
GreenTree Inn San Diego Mission Bay

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, (1877)
"Good budget room in SD"
United States
John
The price is NT$3,042
NT$3,497 total
includes taxes & fees
Jan 4 - 2026/1/5
GreenTree Inn San Diego Mission Bay
Theater show
Homewood Suites by Hilton San Diego Airport/Liberty Station

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, (1358)
"Great place to stay at!"
United States
Sandy
The price is NT$4,995
NT$5,742 total
includes taxes & fees
Jan 4 - 2026/1/5
Homewood Suites by Hilton San Diego Airport/Liberty Station
Free daily buffet breakfast
La Quinta Inn & Suites by Wyndham San Diego Mission Bay

La Quinta Inn & Suites by Wyndham San Diego Mission Bay

La Quinta Inn & Suites by Wyndham San Diego Mission Bay
3.0 star property
North Pacific Beach, 3.5 km from Mission Bay
8.0 out of 10, Very Good, (1434)
"Friendly staff, clean room"
United States
Janice
The price is NT$2,889
NT$3,321 total
includes taxes & fees
Jan 7 - 2026/1/8
La Quinta Inn & Suites by Wyndham San Diego Mission Bay
Exterior
Bay Club Hotel & Marina

Bay Club Hotel & Marina

Bay Club Hotel & Marina
3.5 star property
6.8 km from Mission Bay
9.2 out of 10, Wonderful, (3205)
"Great stay and location!"
United States
Jason
The price is NT$3,664
NT$4,212 total
includes taxes & fees
Jan 5 - 2026/1/6
Bay Club Hotel & Marina
Free breakfast
SureStay Hotel by Best Western San Diego Pacific Beach

SureStay Hotel by Best Western San Diego Pacific Beach

SureStay Hotel by Best Western San Diego Pacific Beach
2.5 star property
Pacific Beach, 3.1 km from Mission Bay
8.0 out of 10, Very Good, (1422)
"our stay was great and staff was supportive..."
United States
Ramesh
The price is NT$2,499
NT$2,823 total
includes taxes & fees
Jan 4 - 2026/1/5
SureStay Hotel by Best Western San Diego Pacific Beach
3 restaurants, breakfast, lunch, dinner served; Regional cuisine
Wyndham San Diego Bayside

Wyndham San Diego Bayside

Wyndham San Diego Bayside
4.0 star property
8 km from Mission Bay
8.4 out of 10, Very Good, (6044)
"Always an amazing stay"
United States
Jana
The price is NT$4,266
NT$5,861 total
includes taxes & fees
Dec 24 - Dec 25
Wyndham San Diego Bayside
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.
View all properties

Where to stay in Mission Bay

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

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.

Gaslamp Quarter showing signage, night scenes and street scenes

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.

Pacific Beach Park showing a beach

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.

Belmont Park showing rides and a garden

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

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

Top Mission Bay Hotel Reviews

Wyndham San Diego Bayside

Wyndham San Diego Bayside

10/10 Excellent
"All excellent "
Gary Vincent 1-night trip
Posted 19 hours ago
Wyndham San Diego Bayside

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 Expedia customer reviews, Paradise Point Resort & Spa is the highest ranked property in Mission Bay. This resort offers a marina and 5 outdoor pools. Other favorite options in the area include The Dana on Mission Bay and San Diego Mission Bay Resort.
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 Mission Bay Golf Course while you're in the neighborhood. Mission Beach and Hotel Circle are some favorite places to visit in the area around Mission Bay. When you're sightseeing in San Diego, North Cove Beach and Bahia Point Beach are also worth a stop.