A harbor with multiple sailboats and a bridge in the background.

Hotels in Harbor Island, San Diego

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Check prices for these dates

This weekend
21 Aug - 23 Aug
Next weekend
28 Aug - 30 Aug

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Our top choices for Harbor Island hotels

An outdoor terrace with tables and chairs, string lights, and a view of the marina.

1. Hilton San Diego Airport/Harbor Island

Hilton San Diego Airport/Harbor Island
3.5 star property
Harbor Island
8.8 out of 10, Excellent, (1,206 reviews)
"Staff was wonderful and very helpful - airport shuttle was a breeze and staff’s knowledge of restaurant recommendations was spot on."
United States
Katherine Martinez
The price is RM660
RM759 total
includes taxes & fees
20 Sept - 21 Sept
Hilton San Diego Airport/Harbor Island
A balcony with wicker furniture overlooking a marina and a coastal cityscape.

2. Sheraton San Diego Resort

Sheraton San Diego Resort
4.0 star property
Harbor Island
8.6 out of 10, Excellent, (3,666 reviews)
"Love this place is clean and has a lot of good places around Love it"
United States
BRYAN
The price is RM617
RM914 total
includes taxes & fees
2 Sept - 3 Sept
Sheraton San Diego Resort
A spacious lobby with a large seating area, a wooden ceiling, and large windows offering a view of the outdoor patio area.

3. Hampton Inn & Suites San Diego Airport Liberty Station

Hampton Inn & Suites San Diego Airport Liberty Station
2.5 star property
0.7 km from Harbor Island
9.2 out of 10, Wonderful, (1,707 reviews)
"Very happy with the overall stay. Very efficient procedure from check in to check out."
United States
Ivan
The price is RM635
RM730 total
includes taxes & fees
30 Aug - 31 Aug
Hampton Inn & Suites San Diego Airport Liberty Station
A hotel complex with multiple buildings, a landscaped garden, and a body of water reflecting the sunset.

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

Homewood Suites by Hilton San Diego Airport/Liberty Station
3.0 star property
1 km from Harbor Island
9.4 out of 10, Exceptional, (1,672 reviews)
"Great place to stay second time going."
United States
Sergio
The price is RM759
RM872 total
includes taxes & fees
31 Aug - 1 Sept
Homewood Suites by Hilton San Diego Airport/Liberty Station
A square pizza on a wooden board with a fire pit in the background.

5. DoubleTree by Hilton San Diego Bayside

DoubleTree by Hilton San Diego Bayside
3.0 star property
1.6 km from Harbor Island
8.4 out of 10, Very good, (1,065 reviews)
"Great stay"
United States
Jorge
The price is RM627
RM721 total
includes taxes & fees
30 Aug - 31 Aug
DoubleTree by Hilton San Diego Bayside
A hotel room with two beds, a desk, a chair, and a large window with a view of the outdoors.

6. Best Western Yacht Harbor Hotel

Best Western Yacht Harbor Hotel
2.5 star property
1.7 km from Harbor Island
8.4 out of 10, Very good, (2,029 reviews)
"Had a nice stay at the B-Dub! Hotel location was perfect and the daily breakfast got us fueled up and ready for our adventures."
United States
Donald
The price is RM530
RM608 total
includes taxes & fees
23 Aug - 24 Aug
Best Western Yacht Harbor Hotel
A resort with two-story buildings, balconies, and a pool area.

7. Humphreys Half Moon Inn

Humphreys Half Moon Inn
3.5 star property
1.8 km from Harbor Island
9.2 out of 10, Wonderful, (3,103 reviews)
"I have stayed here many times and will continue to come back."
United States
Michelle
The price is RM764
RM960 total
includes taxes & fees
30 Aug - 31 Aug
Humphreys Half Moon Inn
A balcony with a table set for two, overlooking a marina with numerous boats.

8. Bay Club Hotel & Marina

Bay Club Hotel & Marina
3.5 star property
2 km from Harbor Island
9.2 out of 10, Wonderful, (3,877 reviews)
"Great place"
Canada
Wade
The price is RM625
RM718 total
includes taxes & fees
7 Sept - 8 Sept
Bay Club Hotel & Marina
A reception area with a stone archway, a reception desk, and potted plants.

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

Holiday Inn Express San Diego Airport - Old Town by IHG
2.5 star property
2.9 km from Harbor Island
9.2 out of 10, Wonderful, (1,094 reviews)
"Very good hotel at the price with good choice of breakfast."
United States
Tirthankar
The price is RM552
RM634 total
includes taxes & fees
1 Sept - 2 Sept
Holiday Inn Express San Diego Airport - Old Town by IHG
An aerial view of a marina with numerous boats docked, surrounded by a residential area with buildings and streets.

10. Comfort Inn San Diego Airport At The Harbor

Comfort Inn San Diego Airport At The Harbor
3.5 star property
2 km from Harbor Island
7.8 out of 10, Good, (1,654 reviews)
"Staff was friendly and good location."
United States
Daniel
The price is RM459
RM519 total
includes taxes & fees
21 Sept - 22 Sept
Comfort Inn San Diego Airport At The Harbor
A modern building with a sloped roof and large windows, surrounded by palm trees and a well-maintained garden.

11. Best Western Plus Island Palms Hotel & Marina

Best Western Plus Island Palms Hotel & Marina
3.0 star property
2.3 km from Harbor Island
9.0 out of 10, Wonderful, (1,641 reviews)
"Great location"
United States
Jay
The price is RM567
RM652 total
includes taxes & fees
7 Sept - 8 Sept
Best Western Plus Island Palms Hotel & Marina
A well-lit retail area with shelves displaying various products, a poolside view, and a palm tree.

12. Sea Harbor Hotel

Sea Harbor Hotel
2.0 star property
2.1 km from Harbor Island
8.6 out of 10, Excellent, (1,053 reviews)
"The cutest little hotel in an amazing location! We would stay here again in a heartbeat!"
Canada
Taylor
The price is RM475
RM536 total
includes taxes & fees
23 Aug - 24 Aug
Sea Harbor Hotel
A modern dining area with multiple tables and chairs, large windows, and artwork on the walls.

13. Comfort Inn San Diego Old Town

Comfort Inn San Diego Old Town
2.5 star property
Old Town San Diego, 2.9 km from Harbor Island
8.2 out of 10, Very good, (2,065 reviews)
"Friendly staff and great breakfast!"
Canada
Heather
The price is RM438
RM503 total
includes taxes & fees
1 Sept - 2 Sept
Comfort Inn San Diego Old Town
A hotel with a central courtyard, palm trees, and a fountain.

14. 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, 3.7 km from Harbor Island
8.8 out of 10, Excellent, (1,517 reviews)
"Loved the stay the staff were amazing!"
United States
Cari
The price is RM507
RM583 total
includes taxes & fees
20 Sept - 21 Sept
Hilton Garden Inn San Diego Old Town/SeaWorld Area
A building with a "Bienvenidos" sign, palm trees, and a well-maintained garden.

15. Old Town Inn

Old Town Inn
2.5 star property
3 km from Harbor Island
9.0 out of 10, Wonderful, (1,947 reviews)
"Great place to stay!!!"
United States
Layne
The price is RM626
RM718 total
includes taxes & fees
7 Sept - 8 Sept
Old Town Inn
A modern building with multiple windows, outdoor seating, and a chessboard.

16. 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
3.4 km from Harbor Island
9.2 out of 10, Wonderful, (1,245 reviews)
"Clean, well maintained hotel and friendly and helpful staff."
United States
Steffany
The price is RM596
RM685 total
includes taxes & fees
31 Aug - 1 Sept
Hampton Inn & Suites by Hilton San Diego SeaWorld Near Old Town
A hotel courtyard with outdoor seating, palm trees, and a view of the ocean at dusk.

17. Wyndham San Diego Bayside

Wyndham San Diego Bayside
4.0 star property
3.3 km from Harbor Island
8.6 out of 10, Excellent, (6,275 reviews)
"Great place to stay"
United States
Jennifer
The price is RM615
RM854 total
includes taxes & fees
24 Aug - 25 Aug
Wyndham San Diego Bayside
An outdoor lounge area with seating, a fire feature, and a view of the building's interior.

18. Hampton Inn San Diego/Mission Valley

Hampton Inn San Diego/Mission Valley
2.5 star property
4.4 km from Harbor Island
8.6 out of 10, Excellent, (1,705 reviews)
"great place. breakfast good"
United States
Gema
The price is RM529
RM608 total
includes taxes & fees
30 Aug - 31 Aug
Hampton Inn San Diego/Mission Valley
A hotel room with two beds, a sofa, a desk, and a TV.

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

Holiday Inn Express San Diego - SeaWorld Area by IHG
2.5 star property
3.7 km from Harbor Island
8.8 out of 10, Excellent, (1,011 reviews)
"Verygood breakfast and nice people"
United States
Xiaotong
The price is RM546
RM628 total
includes taxes & fees
30 Aug - 31 Aug
Holiday Inn Express San Diego - SeaWorld Area by IHG
A modern hotel lobby with a central seating area, a bar, and a large window providing natural light.

20. Wyndham Garden San Diego Near SeaWorld

Wyndham Garden San Diego Near SeaWorld
3.0 star property
3.3 km from Harbor Island
7.4 out of 10, Good, (4,189 reviews)
"It was a good stay for the price!"
United States
marissa
The price is RM496
RM570 total
includes taxes & fees
2 Sept - 3 Sept
Wyndham Garden San Diego Near SeaWorld
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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Where to stay in Harbor Island

Find the best Harbor Island areas for the activities you enjoy most.
A plaza with a traditional building, benches, and a large tree.

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 beach with surfers and swimmers during sunset.

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 roller coaster under construction with scaffolding and a ticket booth in the foreground.

Mission Beach

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

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

Gaslamp Quarter

The historic heart of San Diego has a fascinating history, and today is a thriving hub for food, retail and entertainment.

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

Mission Bay

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

Top Harbor Island Hotel Reviews

California Suites Hotel

California Suites Hotel

10/10 Excellent
"It was in a quiet and safe location. The pool was large and grounds were very clean. Room was Adequate for the price."
Randy 2-night trip
Posted less than an hour ago
California Suites Hotel

Frequently asked questions

What's it like in Harbor Island?
Harbor Island is a scenic neighbourhood known for its beautiful island views and array of dining options. Consider a visit to San Diego Bay as part of your Harbor Island travel plans.
Where is the best place to stay in Harbor Island?
Based on our traveller data, Sheraton San Diego Resort is one of the top choices for your stay in Harbor Island. This hotel is a short 1-minute walk from San Diego Bay, and it offers a marina and 3 outdoor pools.
How many hotels should I expect to find in the Harbor Island area?
Book one of Expedia's 6 hotels and other accommodation options in Harbor Island and start exploring everything San Diego has to offer.
If I need to cancel my hotel reservation in Harbor Island, will I receive a refund?
Yes, the majority of hotel reservations are fully refundable if cancelled before the accommodation's cancellation deadline, which in most cases is within 24 or 48 hours of your arrival date. If you have a reservation that's non-refundable, you may still be able to cancel and get a refund within 24 hours of your booking. Enter dates in and click on "Search", then you can use the "fully refundable" filter to view the top deals on offer in Harbor Island.
What is there to do around this San Diego neighbourhood?
San Diego Bay is an attraction you might want to check out while you're in Harbor Island. While you're out sightseeing in San Diego, make sure that you visit other sights such as Marine Corps Recruit Depot or Port of San Diego.