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

A large abstract sculpture with a spiral base in a park.

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Our top choices for Shelter Island hotels

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

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

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

A resort with a swimming pool, lounge chairs, and a view of a lake and city skyline.

1. Courtyard by Marriott San Diego Airport/Liberty Station

2.6 km from Shelter Island

Jaycie Nicole

HK$1,460

HK$1,678 total

includes taxes & fees

1 Nov - 2 Nov

A balcony with a table set for two, overlooking a marina with numerous boats.

A modern hotel room with a balcony, a sofa, a chair, a coffee table, and two bedside tables with lamps.

A pool area with lounge chairs and umbrellas, overlooking a marina with numerous boats.

A spacious lobby with a reception desk, seating area, and a clear view of the elevator.

2. Bay Club Hotel & Marina

0.7 km from Shelter Island

Thuan

HK$1,107

HK$1,272 total

includes taxes & fees

28 Oct - 29 Oct

A resort with two-story buildings, balconies, and a pool area.

A canal lined with palm trees and a row of buildings with balconies.

A restaurant with a view of a marina, featuring high ceilings, modern lighting, and a central chandelier.

An outdoor bar area with a pool, bar stools, and a variety of bottles.

3. Humphreys Half Moon Inn

1 km from Shelter Island

Svenja

HK$1,366

HK$1,727 total

includes taxes & fees

16 Nov - 17 Nov

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

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

A hotel entrance with a modern design, palm trees, and a sign indicating it is part of the Best Western Plus chain.

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$1,021

HK$1,173 total

includes taxes & fees

17 Nov - 18 Nov

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

A marina with numerous boats, a Hilton hotel, and a view of the surrounding cityscape.

A hotel room with two beds, a desk, a TV, and a mirror.

A conference room with a long table, chairs, and various amenities like a coffee station and a clock on the wall.

5. Hilton San Diego Airport/Harbor Island

2.5 km from Shelter Island

Amos

HK$1,281

HK$1,472 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 spacious hotel lobby with a geometric patterned carpet, leather armchairs, a sofa, and a dining table. Large windows offer views of the outside.

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

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

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

2.8 km from Shelter Island

Chase

HK$1,476

HK$1,697 total

includes taxes & fees

25 Oct - 26 Oct

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

A modern bedroom with a bed, a TV mounted on the wall, and a window with curtains.

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.

7. The Pearl Hotel

1.6 km from Shelter Island

Jane

HK$1,231

HK$1,390 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 hotel room with a large bed, a chair, a small table, and a window with a view of palm trees and parked cars outside.

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

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

8. Sea Harbor Hotel

1.4 km from Shelter Island

Michael

HK$778

HK$878 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 modern kitchen with a coffee station, a dining area with a large table and chairs, and a carpeted floor.

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

A gym with a treadmill, elliptical, and weight machines.

9. Best Western Yacht Harbor Hotel

1.7 km from Shelter Island

Claudia

HK$895

HK$1,027 total

includes taxes & fees

8 Nov - 9 Nov

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

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

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

A spacious indoor dining area with high ceilings, wooden beams, and a mix of booth and table seating.

10. DoubleTree by Hilton San Diego Bayside

1.8 km from Shelter Island

Thomas

HK$1,216

HK$1,398 total

includes taxes & fees

25 Oct - 26 Oct

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.

11. Kona Kai San Diego

0.3 km from Shelter Island

Michael

HK$1,563

HK$2,268 total

includes taxes & fees

25 Oct - 26 Oct

An outdoor patio area with seating arrangements, a fire feature, and ambient lighting.

A modern building with a curved facade and a sign that reads "MONSARAZ."

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

A conference room with wooden beams, a fireplace, and large windows.

12. The Monsaraz San Diego, Tapestry Collection by Hilton

1.6 km from Shelter Island

Deborah

HK$1,216

HK$1,398 total

includes taxes & fees

8 Nov - 9 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 hotel with a sign reading 'LYFE INN SUITES,' a two-story structure with a balcony on the second floor, and a parking lot in front.

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$841

HK$948 total

includes taxes & fees

19 Oct - 20 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 hotel rooftop with a swimming pool, outdoor seating, and a view of the marina and cityscape.

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

Sean

HK$749

HK$846 total

includes taxes & fees

17 Nov - 18 Nov

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

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

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

15. Hotel Point Loma

1.5 km from Shelter Island

Clint

HK$700

HK$838 total

includes taxes & fees

9 Nov - 10 Nov

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

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

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

A hotel room with a large bed, a red armchair, a balcony with a view of boats and buildings, and a lamp on the nightstand.

16. Ramada by Wyndham San Diego Airport

1.6 km from Shelter Island

Aaron

HK$841

HK$965 total

includes taxes & fees

1 Nov - 2 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$629

HK$709 total

includes taxes & fees

19 Oct - 20 Oct

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

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.

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

18. Samesun Ocean Beach - Hostel

Ocean Beach, 4.3 km from Shelter Island

Robert

HK$469

HK$530 total

includes taxes & fees

9 Nov - 10 Nov

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

A cozy living room with a fireplace, a sofa, a dining table, and a chair.

19. 1906 Lodge

5.9 km from Shelter Island

Judith

HK$2,111

HK$2,326 total

includes taxes & fees

1 Nov - 2 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.

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

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

20. Crown City Inn

5.4 km from Shelter Island

Kara

HK$1,307

HK$1,437 total

includes taxes & fees

8 Nov - 9 Nov

View all properties

Compare popular hotels close to Shelter Island

Property	Property class	Guest rating
Courtyard by Marriott San Diego Airport/Liberty Station	9.2 Wonderful 1,248 reviews	View
Bay Club Hotel & Marina	9.2 Wonderful 4,021 reviews	View
Humphreys Half Moon Inn	9.2 Wonderful 3,138 reviews	View
Best Western Plus Island Palms Hotel & Marina	9.0 Wonderful 1,609 reviews	View
Hilton San Diego Airport/Harbor Island	8.8 Excellent 1,217 reviews	View

Top Shelter Island Hotel Reviews

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

10/10 Excellent

"Good"

Best Western Yacht Harbor Hotel

10/10 Excellent

"Clean rooms, great breakfast"

Wyndham San Diego Bayside

8/10 Good

"No complains"

Courtyard by Marriott San Diego Airport/Liberty Station

10/10 Excellent

"I had a wonderful stay! The staff were incredibly friendly, welcoming, and helpful throughout our visit. The hotel was clean, fresh, and well-maintained, and the pool was lovely! I also appreciated the convenience of having coin-operated laundry facilities available on-site. Overall, it was a fantastic experience, and I will definitely be staying here again. Highly recommend!"

Homewood Suites by Hilton San Diego Airport/Liberty Station

10/10 Excellent

"I have never been in a hotel where every person working there was as cheerful and helpful and customer oriented. The rooms were excellent. The location by the airport was perfect. I wouldn't hesitate to book again."

Sea Harbor Hotel

10/10 Excellent

"⭐ 10/10 – Amazing Stay and Wonderful Customer Service! I absolutely loved my stay at Sea Harbor Hotel! I made a very last-minute reservation around 7 PM during Tropical Storm Rachel and arrived about an hour later, completely soaking wet and just praying everything went smoothly with my Expedia booking. Thankfully, check-in was a breeze! The gentleman at the front desk was friendly, welcoming, and even joked around with me a little, which was exactly what I needed after such a stressful evening. He reminded me of my dad. Our room was wonderful! It was incredibly clean, comfortable, and quiet. The location was also fantastic, with so many great places nearby to grab something to eat. What really stood out was how understanding and accommodating the staff were when I experienced a family emergency that required an unexpected, last-minute change to my plans. Their kindness and flexibility meant so much during an already stressful situation. I'm so glad we ended up staying here! Between the hospitality, cleanliness, and convenient location, Sea Harbor Hotel exceeded my expectations. I will absolutely be returning on my next trip to San Diego! 10/10 – Highly recommend!"

Other attractions near Shelter Island

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

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Star rating

Guest rating

Our top choices for Shelter Island hotels

1. Courtyard by Marriott San Diego Airport/Liberty Station

2. Bay Club Hotel & Marina

3. Humphreys Half Moon Inn

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. Sea Harbor Hotel

9. Best Western Yacht Harbor Hotel

10. DoubleTree by Hilton San Diego Bayside

11. Kona Kai San Diego

12. The Monsaraz San Diego, Tapestry Collection by Hilton

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

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

Best Western Yacht Harbor Hotel

Wyndham San Diego Bayside

Courtyard by Marriott San Diego Airport/Liberty Station

Homewood Suites by Hilton San Diego Airport/Liberty Station

Sea Harbor Hotel

Other attractions near Shelter Island

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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