The Best Hotels Closest to Mission Bay in San Diego for 2026

Our top choices for Mission Bay hotels

ITH Mission Beach Backpacker Hostel

Central Mission Beach, 2.4 km from Mission Bay

Jessi

₩150,952 total

includes taxes & fees

Jun 7 - Jun 8

2 outdoor pools, a heated pool, sun loungers

The Dana on Mission Bay

Mission Bay, 1.6 km from Mission Bay

René

₩465,062 total

includes taxes & fees

Jun 15 - Jun 16

5 outdoor pools, a heated pool, pool umbrellas, sun loungers

Paradise Point Resort & Spa

Mission Bay, 1.3 km from Mission Bay

Daniel

₩530,654 total

includes taxes & fees

Jun 14 - Jun 15

The Wayfarer San Diego

Mission Beach, 3 km from Mission Bay

Michael

₩421,369 total

includes taxes & fees

Jun 7 - Jun 8

Outdoor pool, open 7:00 AM to 10:00 PM, cabanas (surcharge)

San Diego Mission Bay Resort

Mission Bay, 1.5 km from Mission Bay

Jean-Michelle

₩590,131 total

includes taxes & fees

Jun 15 - Jun 16

Bahia Resort Hotel

Central Mission Beach, 2 km from Mission Bay

Oswaldo

₩416,863 total

includes taxes & fees

Jun 8 - Jun 9

Studio Suite, 1 King Bed, Courtyard View | View from room

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

3.2 km from Mission Bay

Angela

₩263,284 total

includes taxes & fees

Jun 8 - Jun 9

Fairfield Inn & Suites by Marriott San Diego Pacific Beach

Pacific Beach, 2.9 km from Mission Bay

Jesus

₩306,521 total

includes taxes & fees

Jun 15 - Jun 16

3 outdoor pools, cabanas (surcharge), pool umbrellas

Hyatt Regency Mission Bay Spa and Marina

Mission Bay, 1.9 km from Mission Bay

Yesenia

₩462,368 total

includes taxes & fees

Jun 14 - Jun 15

Catamaran Resort and Spa

Mission Beach, 2.9 km from Mission Bay

Alexandre

₩545,151 total

includes taxes & fees

Jun 14 - Jun 15

Comfort Inn Sea World Area

3.2 km from Mission Bay

Fernando

₩209,190 total

includes taxes & fees

Jun 8 - Jun 9

Best Western San Diego Pacific Beach/Mission Bay

2.5 km from Mission Bay

Richard

₩177,021 total

includes taxes & fees

Jun 17 - Jun 18

GreenTree Inn San Diego Mission Bay

Pacific Beach, 3 km from Mission Bay

Victoria

₩220,363 total

includes taxes & fees

Jun 7 - Jun 8

Desk, laptop workspace, blackout drapes, iron/ironing board

SureStay Hotel by Best Western San Diego Pacific Beach

Pacific Beach, 3 km from Mission Bay

Michael

₩167,553 total

includes taxes & fees

Jun 9 - Jun 10

Surfer Beach Hotel

Pacific Beach, 3 km from Mission Bay

Sondra

₩463,881 total

includes taxes & fees

Jun 15 - Jun 16

ITH Beach Bungalow Surf Hostel

Pacific Beach, 3.2 km from Mission Bay

mike

₩115,231 total

includes taxes & fees

Jun 16 - Jun 17

Heritage Inn San Diego

2.5 km from Mission Bay

Latrice

₩114,925 total

includes taxes & fees

Jun 7 - Jun 8

Wyndham Garden San Diego Near SeaWorld

2.8 km from Mission Bay

Luis

₩209,626 total

includes taxes & fees

Jun 7 - Jun 8

E-Z 8 Motel Old Town

Old Town San Diego, 3.1 km from Mission Bay

Martin

₩109,300 total

includes taxes & fees

Jun 8 - Jun 9

Mission Bay Motel

Pacific Beach, 3 km from Mission Bay

Juan C

₩194,391 total

includes taxes & fees

Jun 6 - Jun 7

View all properties

Compare popular hotels close to Mission Bay

Property	Property class	Guest rating
ITH Mission Beach Backpacker Hostel	2.0 star property	9.4 Exceptional 216 reviews	View
The Dana on Mission Bay	3.5 star property	9.0 Wonderful 4,380 reviews	View
Paradise Point Resort & Spa	4.0 star property	8.8 Excellent 2,633 reviews	View
The Wayfarer San Diego	4.0 star property	9.4 Exceptional 1,789 reviews	View
San Diego Mission Bay Resort	4.0 star property	8.6 Excellent 1,464 reviews	View

Top Mission Bay Hotel Reviews

Heritage Inn San Diego

2/10 Terrible

"Carpet was nasty, dingy and stinky. I had to lay towel on the floor next to bed to wipe my feet before getting into bed. Looks like they're trying to do a remodel, bathroom sink counter and shower were new and nice but black mold appearing through paint."

Wyndham Garden San Diego Near SeaWorld

6/10 Okay

"The room was pretty basic. It had your basic amenities. Water pressure in the shower was weak. Air Conditioner worked well. Parking was available though I don't know that it was worth $20/day. I think if you're a guest, it should already be included to make up for basic-ness of the room. Mini-fridge was pretty shallow. Bathroom light made this really annoying buzzing noise. Toilet needs to be reinstalled/reinforced - kept hitting the wall everytime someone got up from it. Again... just basic. Perks were Panera was right next door and Phil's BBQ was across the street. And on a clear night you could see the Sea World drone show. Oh and in terms of convenience, it was in a pretty central location with plenty of fast food, markets and shopping close by. Would I stay here again? Maybe not but it served its purpose at the time."

The Dana on Mission Bay

2/10 Terrible

"Found a roach in our room by the middle table. Called the front desk and sent someone to spray the walls and said call me if you see it again since the roach came out when we turned on the lights and went and hid behind the middle table. We were unable to sleep comfortably thinking the roach was going to crawl up the or even worse in our luggage. Slept with the lights on. I wish they could have at least moved us to another room. There were spider webs in the corner of the walls by the ac, will not be staying here anymore"

Hotels near other Mission Bay attractions

Ski Beach

Why not spend a lazy afternoon at Ski Beach during your trip to San Diego?

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Frequently asked questions

What's the area like around Mission Bay?

Mission Bay is located in a family-friendly area of San Diego known for its array of dining options and popular zoo. If you're looking for a convenient place to stay, check out the 46 hotels and other accommodations you'll find within a mile.

Where is the best place to stay near Mission Bay?

Paradise Point Resort & Spa is one of the top choices for your stay based on our traveler data, and this resort offers a marina and 5 outdoor pools. It's located just a short 0.8 mi (1.3 km) from Mission Bay. Another good option is San Diego Mission Bay Resort, located just 0.9 mi (1.5 km) away.

How many hotels can I expect to find close to Mission Bay?

Expedia has 46 hotels and other accommodations within a mile from Mission Bay.

If I need to cancel the hotel reservation for my stay near Mission Bay, will I receive a refund?

Yes! You'll find that most hotel bookings are fully refundable provided that you cancel before the hotel's cancellation deadline, which in most cases is within 24 or 48 hours of your arrival date. If your reservation is non-refundable, you may still be able to cancel and be given a refund within 24 hours of booking. Enter your dates, click on "Search", then filter by "fully refundable" to review the top deals on offer near Mission Bay.

Where can I learn more about changing or cancelling my trip in the area near Mission Bay?

For more details about picking new dates or cancelling your stay near Mission Bay, head over to our customer service page.

What can I see and do near Mission Bay?

Study the collections at Maritime Museum of San Diego, Whaley House Museum, or Junipero Serra Museum. Casa de Machado y Stewart, McCoy Museum House, and Casa de Estudillo are well-known local landmarks worth a visit. You can catch a show at Humphreys Concerts by the Bay, San Diego Black Ensemble Theater, and Cygnet Theater Company.

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Our top choices for Mission Bay hotels

ITH Mission Beach Backpacker Hostel

The Dana on Mission Bay

Paradise Point Resort & Spa

The Wayfarer San Diego

San Diego Mission Bay Resort

Bahia Resort Hotel

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

Fairfield Inn & Suites by Marriott San Diego Pacific Beach

Hyatt Regency Mission Bay Spa and Marina

Catamaran Resort and Spa

Comfort Inn Sea World Area

Best Western San Diego Pacific Beach/Mission Bay

GreenTree Inn San Diego Mission Bay

SureStay Hotel by Best Western San Diego Pacific Beach

Surfer Beach Hotel

ITH Beach Bungalow Surf Hostel

Heritage Inn San Diego

Wyndham Garden San Diego Near SeaWorld

E-Z 8 Motel Old Town

Mission Bay Motel

Compare popular hotels close to Mission Bay

Top Mission Bay Hotel Reviews

Heritage Inn San Diego

Hotels near other Mission Bay attractions

Ski Beach

Frequently asked questions

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