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

A spacious hotel lobby with a mix of seating arrangements, including a sofa, round tables, and chairs.

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.

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

1. Hampton Inn & Suites San Diego Airport Liberty Station

2.7 km from Shelter Island

Ana Lopez

HK$1,345

HK$1,546 total

includes taxes & fees

26 Oct - 27 Oct

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 pool area with lounge chairs, a palm tree, and a view of a bridge and buildings in the background.

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

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

2.4 km from Shelter Island

Orlyn

HK$1,435

HK$1,649 total

includes taxes & fees

26 Oct - 27 Oct

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

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.

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

3. Courtyard by Marriott San Diego Airport/Liberty Station

2.6 km from Shelter Island

Luis

HK$1,459

HK$1,678 total

includes taxes & fees

26 Oct - 27 Oct

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.

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

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

4. Best Western Plus Island Palms Hotel & Marina

0.4 km from Shelter Island

Sarah

HK$1,107

HK$1,273 total

includes taxes & fees

3 Nov - 4 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.

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.

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

2.8 km from Shelter Island

Chase

HK$1,379

HK$1,586 total

includes taxes & fees

1 Nov - 2 Nov

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

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

A marina with boats, a hotel with a white facade, and a city skyline in the background.

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

6. Hilton San Diego Airport/Harbor Island

2.5 km from Shelter Island

Amos

HK$1,426

HK$1,639 total

includes taxes & fees

2 Nov - 3 Nov

A modern hotel room with a large bed, a desk, a chair, and a round table.

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

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

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.

7. Sea Harbor Hotel

1.4 km from Shelter Island

Chris

HK$805

HK$908 total

includes taxes & fees

1 Nov - 2 Nov

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

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

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.

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

8. Best Western Yacht Harbor Hotel

1.7 km from Shelter Island

James

HK$894

HK$1,026 total

includes taxes & fees

26 Oct - 27 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.

9. DoubleTree by Hilton San Diego Bayside

1.8 km from Shelter Island

Thomas

HK$1,216

HK$1,398 total

includes taxes & fees

26 Oct - 27 Oct

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 modern hotel with a curved facade, multiple balconies, and large windows.

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

10. The Monsaraz San Diego, Tapestry Collection by Hilton

1.6 km from Shelter Island

CYNTHIA

HK$1,009

HK$1,160 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 neatly made bed with white linens and multiple pillows, a bedside table with a clock and books, and a wall-mounted lamp.

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

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

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

1.2 km from Shelter Island

Carolina

HK$840

HK$947 total

includes taxes & fees

4 Oct - 5 Oct

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

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

A hotel with a Mediterranean architectural style, featuring a curved entrance, palm trees, and a well-lit driveway.

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

12. Kona Kai San Diego

0.2 km from Shelter Island

Michael

HK$1,563

HK$2,268 total

includes taxes & fees

25 Oct - 26 Oct

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

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.

A hotel rooftop with a swimming pool, outdoor seating, and a view of the marina and cityscape.

13. Comfort Inn San Diego Airport At The Harbor

1.6 km from Shelter Island

Douglas

HK$789

HK$891 total

includes taxes & fees

27 Oct - 28 Oct

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

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

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.

14. Ramada by Wyndham San Diego Airport

1.6 km from Shelter Island

Aaron

HK$887

HK$1,018 total

includes taxes & fees

4 Oct - 5 Oct

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

A motel with a covered parking area, a blue car parked in the lot, and a building with blue doors.

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

15. Hotel Point Loma

1.5 km from Shelter Island

Vannika

HK$770

HK$868 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 modern hotel with a prominent 'HOTEL AQUA MAR' sign, large windows, and a visible seating area inside.

16. Hotel Aqua Mar

1.7 km from Shelter Island

Kathryn

HK$664

HK$749 total

includes taxes & fees

5 Oct - 6 Oct

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

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.

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

17. Samesun Ocean Beach - Hostel

Ocean Beach, 4.3 km from Shelter Island

Robert

HK$525

HK$592 total

includes taxes & fees

19 Oct - 20 Oct

A two-story house with a covered porch, a garden with various flowers, and an American flag.

A pathway lined with potted plants and flowers leading to a building entrance.

A neatly made bed with a blue comforter, two bedside lamps, and a wooden headboard.

A living room with a grey sofa, a small coffee table, two lamps, and a window with curtains.

18. Cherokee Lodge

5.3 km from Shelter Island

JAMES

HK$1,393

HK$1,532 total

includes taxes & fees

2 Nov - 3 Nov

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

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

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.

19. Crown City Inn

5.4 km from Shelter Island

Guillaume

HK$1,530

HK$1,683 total

includes taxes & fees

25 Oct - 26 Oct

A modern building with multiple windows, outdoor seating, and a chessboard.

A hotel with a pool, lounge chairs, and a sunset sky.

A spacious indoor area with a pool table, seating, and a staircase.

A modern hotel reception area with a marble counter, a 'Welcome to Hampton' sign, and a reception desk.

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

5.4 km from Shelter Island

Xuan

HK$1,152

HK$1,324 total

includes taxes & fees

1 Nov - 2 Nov

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Compare popular hotels close to Shelter Island

Property	Property class	Guest rating
Hampton Inn & Suites San Diego Airport Liberty Station	9.2 Wonderful 1,708 reviews	View
Homewood Suites by Hilton San Diego Airport/Liberty Station	9.4 Exceptional 1,697 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 1,622 reviews	View
TownePlace Suites by Marriott San Diego Airport/Liberty Station	8.8 Excellent 1,001 reviews	View

Top Shelter Island Hotel Reviews

The Monsaraz San Diego, Tapestry Collection by Hilton

10/10 Excellent

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Bay Club Hotel & Marina

10/10 Excellent

"All the common areas are clean and updated. Room was clean, if a little dated. Can't beat the location and patio overlooking the harbor; almost overhanging the harbor. The water is literally at the edge of the elevated deck. Very peaceful and great view."

Best Western Yacht Harbor Hotel

10/10 Excellent

"A great, perfectly situated hotel. Close to the airport and the cruise port. Very helpful front desk staff."

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

10/10 Excellent

"I found this place by accident for a last minute business trip from SEA to SAN. I wasn't sure where my work event was even taking place, so imagine my surprise and JOY when I realized it was mere blocks away! I landed much earlier than my check-in time (3pm) and I needed to prepare for multiple meetings and get ready for the event I flew there for. No panic needed though, they graciously allowed me to check in early. It was such a kind gesture, and it literally saved my headspace for this trip! The property is beautiful, everything was super clean - all the way from the parking garage to the bathroom. I work in the yachting industry so I notice everything, and there was nothing less than perfect. The location couldn't be any better either, grocery store, coffee shops, sushi, etc.. It was all within walking distance! I loved the local vibe of it all, instead of the tourist feel in other parts of SD. Here is my thank you note I left when I checked out: "I want to thank you AGAIN for such a great stay! You saved my trip by allowing me to check in so early, I made my meeting with plenty of time and it mattered. You guys are great with a beautiful Inn. See you again soon!" I highly recommend Lyfe Inn, what a gem."

The Pearl Hotel

10/10 Excellent

"Palm Springs mid century California vibe smack dab in the middle of coastal San Diego."

Sheraton San Diego Resort

8/10 Good

"Connecting rooms will have thin doors and our next door room was loud. We couldn't sleep because it was noisy but we let the staff know and they were able to move us to a more quiet room."

Hotel Aqua Mar

8/10 Good

"I was on the second floor. It was clean. No elevators. No ice machine. Just needed a place to sleep for a fishing trip I planned. Really close to HM landing. Parking super tight. Lots of food places near by."

DoubleTree by Hilton San Diego Bayside

10/10 Excellent

"front desk staff extremely helpful!"

Comfort Inn San Diego Airport At The Harbor

10/10 Excellent

"Room was nice, bath room was bigger than I thought"

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. Hampton Inn & Suites San Diego Airport Liberty Station

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

3. Courtyard by Marriott San Diego Airport/Liberty Station

4. Best Western Plus Island Palms Hotel & Marina

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

6. Hilton San Diego Airport/Harbor Island

7. Sea Harbor Hotel

8. Best Western Yacht Harbor Hotel

9. DoubleTree by Hilton San Diego Bayside

10. The Monsaraz San Diego, Tapestry Collection by Hilton

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

12. Kona Kai San Diego

13. Comfort Inn San Diego Airport At The Harbor

14. Ramada by Wyndham San Diego Airport

15. Hotel Point Loma

16. Hotel Aqua Mar

17. Samesun Ocean Beach - Hostel

18. Cherokee Lodge

19. Crown City Inn

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

Compare popular hotels close to Shelter Island

Top Shelter Island Hotel Reviews

The Monsaraz San Diego, Tapestry Collection by Hilton

Bay Club Hotel & Marina

Best Western Yacht Harbor Hotel

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

The Pearl Hotel

Sheraton San Diego Resort

Hotel Aqua Mar

DoubleTree by Hilton San Diego Bayside

Comfort Inn San Diego Airport At The Harbor

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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