San Diego Shelter Island Hotels: 2026 Limited-Time Hotel Deals @Expedia

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Our top choices for Shelter Island hotels

A hotel complex with multiple buildings, a landscaped garden, and a body of water reflecting the sunset.

A beach with sand dunes and a person walking.

A hotel with a well-maintained lawn, outdoor lighting, and a clear view of the building's facade.

A modern kitchen area with wooden cabinets, marble countertops, and a central island with plates.

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

2.4 km from Shelter Island

Orlyn

HK$1,435

HK$1,650 total

includes taxes & fees

25 Oct - 26 Oct

A spacious lobby with a large seating area, a wooden ceiling, and large windows offering a view of the outdoor patio area.

A modern hotel with a prominent entrance, multiple floors, and a parking lot.

A modern lobby with wooden ceiling beams, comfortable seating with yellow cushions, a large wooden coffee table, and large windows offering a view of palm trees and a sunset.

An outdoor seating area with tables and chairs, umbrellas, and a fire feature.

2. Hampton Inn & Suites San Diego Airport Liberty Station

2.7 km from Shelter Island

Jason

HK$1,260

HK$1,449 total

includes taxes & fees

8 Nov - 9 Nov

A hotel courtyard with outdoor seating, palm trees, and a view of the sea.

A bar area with multiple seating options, a well-stocked bar, and a television screen.

A modern lobby with a reception desk, seating area, and a large screen.

A Courtyard by Marriott hotel with a well-lit courtyard, outdoor seating, and a view of the surrounding area.

3. Courtyard by Marriott San Diego Airport/Liberty Station

2.6 km from Shelter Island

Luis

HK$1,394

HK$1,603 total

includes taxes & fees

1 Nov - 2 Nov

A modern building with a sloped roof and large windows, surrounded by palm trees and a well-maintained garden.

A spacious lobby with a high ceiling, stone flooring, and wicker furniture.

An outdoor patio with round tables and chairs, large umbrellas, and a marina view in the background.

A restaurant with high ceilings, large windows, and a patterned carpet. Tables are set with chairs and place settings.

4. Best Western Plus Island Palms Hotel & Marina

0.4 km from Shelter Island

Sarah

HK$1,094

HK$1,257 total

includes taxes & fees

9 Nov - 10 Nov

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

A dining table set with plates, glasses, and a bottle of wine, overlooking a marina with boats.

A marina with boats docked, a balcony with chairs, and a view of the marina.

A coastal view with a clear sky, a marina with boats, and a building with a balcony.

5. Hilton San Diego Airport/Harbor Island

2.5 km from Shelter Island

Amos

HK$1,283

HK$1,474 total

includes taxes & fees

8 Nov - 9 Nov

A spacious lounge area with a high ceiling, a fireplace, and large windows offering a view of the outdoors.

A hotel pool area with lounge chairs and umbrellas, surrounded by palm trees and a brick walkway.

An outdoor seating area with sofas, chairs, and umbrellas, surrounded by buildings.

A spacious hotel lobby with a geometric patterned carpet, leather armchairs, a sofa, and a dining table. Large windows offer views of the outside.

6. TownePlace Suites by Marriott San Diego Airport/Liberty Station

2.8 km from Shelter Island

Chase

HK$1,452

HK$1,669 total

includes taxes & fees

25 Oct - 26 Oct

A building with a sign reading "the Pearl" and a modern architectural style.

A bathroom with a wooden bench, a mirror, shelves with toiletries, and a robe hanging on the wall.

A modern interior with a stone wall, leather sofa, and pendant lighting.

A poolside area with a bar and outdoor seating, surrounded by a building with a balcony and string lights.

7. The Pearl Hotel

1.6 km from Shelter Island

Ana Livia

HK$1,231

HK$1,390 total

includes taxes & fees

25 Oct - 26 Oct

A square pizza on a wooden board with a fire pit in the background.

A hotel with a well-maintained lawn, palm trees, and a pool area.

A hotel with a courtyard featuring palm trees, a golf course, and a building with balconies.

8. DoubleTree by Hilton San Diego Bayside

1.8 km from Shelter Island

Thomas

HK$1,152

HK$1,324 total

includes taxes & fees

25 Oct - 26 Oct

A well-lit retail area with shelves displaying various products, a poolside view, and a palm tree.

A modern hotel lobby with white furniture, wooden flooring, and a reception desk.

A marina filled with numerous boats, a distant city skyline, and a clear blue sky.

A modern, well-lit room with a dining area, kitchenette, and a large window offering a city view.

9. Sea Harbor Hotel

1.4 km from Shelter Island

Chris

HK$778

HK$877 total

includes taxes & fees

10 Nov - 11 Nov

A hotel room with two beds, a desk, a chair, and a large window with a view of the outdoors.

A hotel room with two beds, a desk, and a chair.

A modern kitchen with a coffee station, a dining area with a large table and chairs, and a carpeted floor.

A modern hotel room with a blue sofa, a grey armchair, a round coffee table, and a large window offering a view of the outdoors.

10. Best Western Yacht Harbor Hotel

1.7 km from Shelter Island

James

HK$895

HK$1,027 total

includes taxes & fees

8 Nov - 9 Nov

A rooftop terrace with outdoor seating, a view of the marina, and a modern building with large windows.

A modern restaurant with a long wooden bar, black bar stools, and a mix of seating options including a bench and individual chairs.

A bar area with a long wooden table, multiple bar stools, and a variety of liquor bottles and glasses.

A hotel room with two beds, a view of the city, a dining area, and a large window.

11. The Monsaraz San Diego, Tapestry Collection by Hilton

1.6 km from Shelter Island

CYNTHIA

HK$1,216

HK$1,398 total

includes taxes & fees

8 Nov - 9 Nov

A marina with boats, a yacht, and a balcony with two chairs and a table.

A bar area with a curved ceiling, hanging light fixtures, and a large screen displaying a tropical scene.

A pool area with lounge chairs and umbrellas, a bar, and a view of boats in the background.

A large, domed building with a central fountain, surrounded by well-maintained gardens and a calm reflective pool.

12. Kona Kai San Diego

0.2 km from Shelter Island

Michael

HK$1,576

HK$2,405 total

includes taxes & fees

1 Nov - 2 Nov

A balcony with a sofa, chairs, and a small table, overlooking a clear blue sky and palm trees.

A bathroom with a marble wall, a toilet, a bathtub, a sink, and a mirror.

A neatly made bed with white linens and multiple pillows, a bedside table with a clock and books, and a wall-mounted lamp.

A multi-level interior with a staircase, black railings, and hanging lights.

13. LYFE INN & SUITES by AGA - San Diego Airport/Point Loma

1.2 km from Shelter Island

Carolina

HK$840

HK$948 total

includes taxes & fees

21 Oct - 22 Oct

An aerial view of a marina with numerous boats docked, surrounded by a residential area with buildings and streets.

A hotel room with two beds, a desk, a chair, a TV, and a window with blinds.

A rooftop patio with wicker furniture and palm trees, overlooking a marina.

A restaurant with a breakfast bar, ceiling fans, and a kitchen area with appliances.

14. Comfort Inn San Diego Airport At The Harbor

1.6 km from Shelter Island

Luis

HK$877

HK$990 total

includes taxes & fees

26 Oct - 27 Oct

A bedroom with a bed, a nightstand, a TV, and a view of the outdoors.

A compact kitchen with a refrigerator, microwave, sink, and a small countertop.

A reception area with a wooden reception desk, a computer, and a chair.

15. Hotel Point Loma

1.5 km from Shelter Island

Clint

HK$770

HK$868 total

includes taxes & fees

1 Nov - 2 Nov

A marina with numerous boats docked, a clear sky with the sun setting, and a cityscape in the background.

A hotel room with a large bed, two bedside tables with lamps, a wardrobe, and a bench.

A modern hotel lobby with a wooden floor, two white armchairs, a reception desk, an ATM, and a staircase.

A kitchen with wooden cabinets, a microwave, a coffee machine, and a refrigerator.

16. Ramada by Wyndham San Diego Airport

1.6 km from Shelter Island

Aaron

HK$901

HK$1,034 total

includes taxes & fees

9 Nov - 10 Nov

A modern reception area with a wooden bench and a green hedge.

A beige upholstered sofa with blue and yellow patterned cushions, positioned in a room with a wooden floor and a green textured wall.

A hotel room with two beds, a blue wall, a beach-themed artwork, and a window with curtains.

17. Hotel Aqua Mar

1.7 km from Shelter Island

Kathryn

HK$664

HK$749 total

includes taxes & fees

13 Oct - 14 Oct

An outdoor patio area with seating arrangements, a pergola, and a green wall.

A hallway with wooden flooring, a framed artwork of a turtle, and a trash bin.

A hotel room with a bed, a chair, a small table, a plant, and a door leading to a bathroom.

An outdoor patio with tables and chairs, surrounded by tropical plants and artwork.

18. Samesun Ocean Beach - Hostel

Ocean Beach, 4.3 km from Shelter Island

Robert

HK$437

HK$494 total

includes taxes & fees

21 Oct - 22 Oct

A couple walking hand in hand on a sandy beach with the ocean in the background.

A pathway flanked by lush tropical plants and a building with a large archway.

A narrow pathway flanked by buildings with large windows and a well-maintained garden.

A hotel entrance with a covered patio, outdoor seating, and large flower planters.

19. 1906 Lodge

5.9 km from Shelter Island

Bryan Huy

HK$2,111

HK$2,326 total

includes taxes & fees

8 Nov - 9 Nov

A living room with a round table, a blue sofa, a patterned armchair, and a potted plant.

A hotel lobby with a reception desk, a chandelier, a buffet area, and a dining table with a vase and a bowl.

A reception area with a round table, vases, and a chandelier. There is a counter with a computer and a refrigerator in the background.

An outdoor patio area with lounge chairs, a table, and an umbrella.

20. Crown City Inn

5.4 km from Shelter Island

Guillaume

HK$1,448

HK$1,593 total

includes taxes & fees

27 Oct - 28 Oct

View all properties

Compare popular hotels close to Shelter Island

Property	Property class	Guest rating
Homewood Suites by Hilton San Diego Airport/Liberty Station	9.4 Exceptional 1,696 reviews	View
Hampton Inn & Suites San Diego Airport Liberty Station	9.2 Wonderful 1,722 reviews	View
Courtyard by Marriott San Diego Airport/Liberty Station	9.2 Wonderful 1,248 reviews	View
Best Western Plus Island Palms Hotel & Marina	9.0 Wonderful 1,637 reviews	View
Hilton San Diego Airport/Harbor Island	8.8 Excellent 1,203 reviews	View

Top Shelter Island Hotel Reviews

Bay Club Hotel & Marina

10/10 Excellent

"Walk on waterfront to bell was awesome"

Wyndham San Diego Bayside

10/10 Excellent

"Ms. Laily was absolutely wonderful! She was exceptionally friendly, welcoming, and professional. She patiently answered all my questions and went above and beyond to help us with every request. Her warm smile and kind attitude made us feel truly welcome and made our stay much more enjoyable. She is an outstanding receptionist and a real asset to the hotel. Employees like her make a real difference in the guest experience. I highly recommend recognizing her for her excellent service and dedication. Thank you, Ms. Laily, for your kindness and for making our stay so special!"

Sea Harbor Hotel

8/10 Good

"Close to harbor and Humphrey area. Older but clean. Bed too soft and a chair in room would have been nice. Good split system very quiet."

Best Western Plus Island Palms Hotel & Marina

10/10 Excellent

"We had a beautiful stay. Enjoyed our view. I loved shelter island. Can't wait to come again. Nice clean rooms."

Homewood Suites by Hilton San Diego Airport/Liberty Station

10/10 Excellent

"The staff were very helpful and friendly. Complementary breakfast was convenient and delicious."

Ramada by Wyndham San Diego Airport

10/10 Excellent

"My room was quiet and very little light came thru at night which helped me to sleep really good . I had missed a flight and I stayed only one night . Clean place , nice shower."

The Pearl Hotel

10/10 Excellent

"The cutest boutique style hotel in the area will definitely be back!"

Comfort Inn San Diego Airport At The Harbor

10/10 Excellent

"Very good breakfast."

Hotel Aqua Mar

10/10 Excellent

"Perfect place to stay when headed out of San Diego airport. Walking distance to the marina. Check out Mitch's for a cold beer and fish sandwich."

Other attractions near Shelter Island

Sunset Cliffs Natural Park

You can take time to visit Sunset Cliffs Natural Park during your travels to San Diego. Wander the seaside and beautiful beaches in the area.

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Vessel Restaurant

After visiting Vessel Restaurant, make a plan to see the other sights and activities in San Diego. In the area, take in the great live music and beautiful sunsets.

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Kellogs Beach

Why not spend a lazy afternoon at Kellogs Beach during your trip to San Diego? Wander the seaside and beautiful beaches in the area.

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Humphreys Concerts by the Bay

7.4/10 (6 reviews)

You can enjoy a show at Humphreys Concerts by the Bay on your trip to San Diego. Discover the beautiful sunsets and top-notch restaurants in this walkable area.

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Humphreys Backstage Live

Humphreys Backstage Live is just one of the places to see in San Diego, so why not enjoy the other things to explore during your travels? Stroll along the waterfront or discover the area's beautiful sunsets.

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USS Recruit

You can spend time exploring the galleries in USS Recruit during your trip to San Diego. Stroll along the area's marina or experience its great live music.

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Liberty Station Conference Center

Learn about the events happening in Liberty Station Conference Center during your trip to San Diego. Wander the seaside and beautiful beaches in the area.

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Frequently asked questions

What's the area like around Shelter Island?

Shelter Island is located in a family-friendly area of San Diego known for its beautiful island views and great live music scene. If you're looking for a convenient place to stay, take a look at the 38 hotels and other accommodation options you'll find within a mile.

What's the best place to stay near Shelter Island?

Adjacent to Shelter Island, Best Western Plus Island Palms Hotel & Marina is one of the top choices for your stay based on our traveller data, and this hotel offers a marina and 2 outdoor pools. Other good choices within a short distance include Bay Club Hotel & Marina and Humphreys Half Moon Inn.

How many hotels will I be able to find near Shelter Island?

Expedia has 38 hotels and other accommodation options within a mile from Shelter Island.

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

Yes! Most hotel room 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 booked a non-refundable reservation, you might still have the option to cancel and get a refund within 24 hours of your booking. Add dates, click "Search", then you can use the "fully refundable" filter to get the best deals near Shelter Island.

What can I see and do near Shelter Island?

You might want to spend some time browsing the exhibits at USS Midway Museum, Maritime Museum of San Diego or Whaley House Museum. Explore notable local landmarks like Hotel del Coronado, Point Loma Lighthouse and Star of India. You can check out the local talent at Humphreys Concerts by the Bay, The Rady Shell at Jacobs Park and San Diego Civic Theatre.

San Diego Shelter Island Hotels

Change your mind

Treat yourself

Be picky

Check prices for these dates

Filter by

Star rating

Guest rating

Our top choices for Shelter Island hotels

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

2. Hampton Inn & Suites San Diego Airport Liberty Station

3. Courtyard by Marriott San Diego Airport/Liberty Station

4. Best Western Plus Island Palms Hotel & Marina

5. Hilton San Diego Airport/Harbor Island

6. TownePlace Suites by Marriott San Diego Airport/Liberty Station

7. The Pearl Hotel

8. DoubleTree by Hilton San Diego Bayside

9. Sea Harbor Hotel

10. Best Western Yacht Harbor Hotel

11. The Monsaraz San Diego, Tapestry Collection by Hilton

12. Kona Kai San Diego

13. LYFE INN & SUITES by AGA - San Diego Airport/Point Loma

14. Comfort Inn San Diego Airport At The Harbor

15. Hotel Point Loma

16. Ramada by Wyndham San Diego Airport

17. Hotel Aqua Mar

18. Samesun Ocean Beach - Hostel

19. 1906 Lodge

20. Crown City Inn

Compare popular hotels close to Shelter Island

Top Shelter Island Hotel Reviews

Bay Club Hotel & Marina

Wyndham San Diego Bayside

Sea Harbor Hotel

Best Western Plus Island Palms Hotel & Marina

Homewood Suites by Hilton San Diego Airport/Liberty Station

Ramada by Wyndham San Diego Airport

The Pearl Hotel

Comfort Inn San Diego Airport At The Harbor

Hotel Aqua Mar

Other attractions near Shelter Island

Sunset Cliffs Natural Park

Vessel Restaurant

Kellogs Beach

Humphreys Concerts by the Bay

Humphreys Backstage Live

USS Recruit

Liberty Station Conference Center

Frequently asked questions

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