Search Hotels Near Shelter Island, San Diego

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6 Nov - 7 Nov
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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.

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

Homewood Suites by Hilton San Diego Airport/Liberty Station
3.0 star property
2.4 km from Shelter Island
9.4 out of 10, Exceptional, (1,706 reviews)
"Very pleasant stay."
United States
Alicia
The price is ฿5,869
฿6,746 total
includes taxes & fees
16 Nov - 17 Nov
Homewood Suites by Hilton San Diego Airport/Liberty Station
A hotel courtyard with outdoor seating, palm trees, and a view of the sea.

2. Courtyard by Marriott San Diego Airport/Liberty Station

Courtyard by Marriott San Diego Airport/Liberty Station
3.0 star property
2.6 km from Shelter Island
9.2 out of 10, Wonderful, (1,239 reviews)
"I have stayed there before. Very comfortable and close to the airport."
United States
Maureen
The price is ฿6,225
฿7,155 total
includes taxes & fees
8 Nov - 9 Nov
Courtyard by Marriott San Diego Airport/Liberty Station
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
2.7 km from Shelter Island
9.2 out of 10, Wonderful, (1,738 reviews)
"Very clean property and helpful, friendly staff."
United States
Dean
The price is ฿5,371
฿6,174 total
includes taxes & fees
22 Nov - 23 Nov
Hampton Inn & Suites San Diego Airport Liberty Station
A table with a fire feature, a charcuterie board, and two glasses of wine, overlooking a marina with boats.

4. Bay Club Hotel & Marina

Bay Club Hotel & Marina
3.5 star property
0.7 km from Shelter Island
9.2 out of 10, Wonderful, (4,059 reviews)
"Beautiful, clean hotel and friendly staff!!"
United States
Robin
The price is ฿5,090
฿5,851 total
includes taxes & fees
9 Nov - 10 Nov
Bay Club Hotel & Marina
A modern building with a sloped roof and large windows, surrounded by palm trees and a well-maintained garden.

5. Best Western Plus Island Palms Hotel & Marina

Best Western Plus Island Palms Hotel & Marina
3.0 star property
0.4 km from Shelter Island
9.0 out of 10, Wonderful, (1,638 reviews)
"Excellent location, great amenities and easy parking close to room."
Australia
Adam
The price is ฿4,256
฿4,892 total
includes taxes & fees
23 Nov - 24 Nov
Best Western Plus Island Palms Hotel & Marina
A resort with two-story buildings, balconies, and a pool area.

6. Humphreys Half Moon Inn

Humphreys Half Moon Inn
3.5 star property
1 km from Shelter Island
9.2 out of 10, Wonderful, (3,158 reviews)
"Best place to stay in San Diego and I will be coming back"
United States
Ronald
The price is ฿5,343
฿6,813 total
includes taxes & fees
23 Nov - 24 Nov
Humphreys Half Moon Inn
An outdoor patio with string lights, tables, chairs, and a bar area with bottles.

7. Hilton San Diego Airport/Harbor Island

Hilton San Diego Airport/Harbor Island
3.5 star property
2.5 km from Shelter Island
8.8 out of 10, Excellent, (1,216 reviews)
"Nice view of the harbor"
United States
Alan
The price is ฿5,210
฿5,989 total
includes taxes & fees
29 Nov - 30 Nov
Hilton San Diego Airport/Harbor Island
A spacious lounge area with a high ceiling, a fireplace, and large windows offering a view of the outdoors.

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

TownePlace Suites by Marriott San Diego Airport/Liberty Station
3.0 star property
2.8 km from Shelter Island
8.8 out of 10, Excellent, (1,001 reviews)
"Such a great place to stay"
United States
Chase
The price is ฿5,692
฿6,543 total
includes taxes & fees
23 Nov - 24 Nov
TownePlace Suites by Marriott San Diego Airport/Liberty Station
A well-lit retail area with shelves displaying various products, a poolside view, and a palm tree.

9. Sea Harbor Hotel

Sea Harbor Hotel
2.0 star property
1.4 km from Shelter Island
8.4 out of 10, Very good, (1,089 reviews)
"The location is great."
United States
Roxanne
The price is ฿3,493
฿3,939 total
includes taxes & fees
10 Nov - 11 Nov
Sea Harbor Hotel
A square pizza on a wooden board with a fire pit in the background.

10. DoubleTree by Hilton San Diego Bayside

DoubleTree by Hilton San Diego Bayside
3.0 star property
1.8 km from Shelter Island
8.4 out of 10, Very good, (1,101 reviews)
"Great location on the water with great views."
Canada
Mike
The price is ฿4,638
฿5,331 total
includes taxes & fees
22 Nov - 23 Nov
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.

11. Best Western Yacht Harbor Hotel

Best Western Yacht Harbor Hotel
2.5 star property
1.7 km from Shelter Island
8.4 out of 10, Very good, (2,107 reviews)
"Clean rooms, great breakfast"
United States
Elizabeth
The price is ฿3,815
฿4,378 total
includes taxes & fees
6 Dec - 7 Dec
Best Western Yacht Harbor Hotel
View from room

12. The Monsaraz San Diego, Tapestry Collection by Hilton

The Monsaraz San Diego, Tapestry Collection by Hilton
3.5 star property
1.6 km from Shelter Island
8.4 out of 10, Very good, (861 reviews)
"Great stay."
United States
Jocelyn
The price is ฿4,932
฿5,669 total
includes taxes & fees
15 Nov - 16 Nov
The Monsaraz San Diego, Tapestry Collection by Hilton
A marina with boats, a yacht, and a balcony with two chairs and a table.

13. Kona Kai San Diego

Kona Kai San Diego
4.0 star property
0.3 km from Shelter Island
8.2 out of 10, Very good, (1,000 reviews)
"Would definitely stay here again"
United States
Michael
The price is ฿6,131
฿9,055 total
includes taxes & fees
29 Nov - 30 Nov
Kona Kai San Diego
A balcony with a sofa, chairs, and a small table, overlooking a clear blue sky and palm trees.

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

LYFE INN & SUITES by AGA - San Diego Airport/Point Loma
2.0 star property
1.2 km from Shelter Island
8.0 out of 10, Very good, (198 reviews)
"Clean room nice staff quiet place overall and in a good area."
United States
Carolina
The price is ฿3,584
฿4,041 total
includes taxes & fees
29 Nov - 30 Nov
LYFE INN & SUITES by AGA - San Diego Airport/Point Loma
A bedroom with a bed, a nightstand, a TV, and a view of the outdoors.

15. Hotel Point Loma

Hotel Point Loma
2.0 star property
1.5 km from Shelter Island
7.8 out of 10, Good, (523 reviews)
"Quick and easy place to stay before my flight in the morning."
Canada
Clint
The price is ฿2,821
฿3,388 total
includes taxes & fees
9 Nov - 10 Nov
Hotel Point Loma
An aerial view of a marina with numerous boats docked, surrounded by a residential area with buildings and streets.

16. Comfort Inn San Diego Airport At The Harbor

Comfort Inn San Diego Airport At The Harbor
3.5 star property
1.6 km from Shelter Island
7.8 out of 10, Good, (1,744 reviews)
"Great place! Better location and wonderful Staff"
United States
JJ
The price is ฿3,101
฿3,502 total
includes taxes & fees
30 Nov - 1 Dec
Comfort Inn San Diego Airport At The Harbor
A marina with numerous boats docked, a clear sky with the sun setting, and a cityscape in the background.

17. Ramada by Wyndham San Diego Airport

Ramada by Wyndham San Diego Airport
3.0 star property
1.6 km from Shelter Island
7.6 out of 10, Good, (1,002 reviews)
"We are a repeat guest.A great location, great amenities & breakfast. Hotel staff was polite, a nice stay."
United States
Diana
The price is ฿3,025
฿3,471 total
includes taxes & fees
10 Nov - 11 Nov
Ramada by Wyndham San Diego Airport
A modern reception area with a wooden bench and a green hedge.

18. Hotel Aqua Mar

Hotel Aqua Mar
2.0 star property
1.7 km from Shelter Island
6.4 out of 10, (1,000 reviews)
"Great place to stay. I needed a simple room and bathroom. It was clean, comfortable, the towels were nice and the location was perfect. Enjoyed it!"
United States
Kathryn
The price is ฿2,547
฿2,871 total
includes taxes & fees
9 Nov - 10 Nov
Hotel Aqua Mar
An outdoor patio area with seating arrangements, a pergola, and a green wall.

19. Samesun Ocean Beach - Hostel

Samesun Ocean Beach - Hostel
2.0 star property
Ocean Beach, 4.3 km from Shelter Island
9.6 out of 10, Exceptional, (623 reviews)
"Always a great stay!"
United States
Robert
The price is ฿1,853
฿2,093 total
includes taxes & fees
18 Nov - 19 Nov
Samesun Ocean Beach - Hostel
A hotel entrance with a stone archway, a reception desk, and potted plants.

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

Holiday Inn Express San Diego Airport - Old Town by IHG
2.5 star property
5.5 km from Shelter Island
9.2 out of 10, Wonderful, (1,099 reviews)
"Great family hotel. Simple and clean yummy breakfast inexpensive and perfect for our short stay in sd"
United States
Alejandra
The price is ฿4,570
฿5,253 total
includes taxes & fees
9 Nov - 10 Nov
Holiday Inn Express San Diego Airport - Old Town by IHG
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.
View all properties

Compare top hotels near Shelter Island

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

Homewood Suites by Hilton San Diego Airport/Liberty Station

3.0 star property
2.4 km from Shelter Island
View
A hotel courtyard with outdoor seating, palm trees, and a view of the sea.

Courtyard by Marriott San Diego Airport/Liberty Station

3.0 star property
2.6 km from Shelter Island
View
A spacious lobby with a large seating area, a wooden ceiling, and large windows offering a view of the outdoor patio area.

Hampton Inn & Suites San Diego Airport Liberty Station

2.5 star property
2.7 km from Shelter Island
View
A table with a fire feature, a charcuterie board, and two glasses of wine, overlooking a marina with boats.

Bay Club Hotel & Marina

3.5 star property
0.7 km from Shelter Island
View
A modern building with a sloped roof and large windows, surrounded by palm trees and a well-maintained garden.

Best Western Plus Island Palms Hotel & Marina

3.0 star property
0.4 km from Shelter Island
View
9.4
Exceptional
1,706 reviews
9.2
Wonderful
1,239 reviews
9.2
Wonderful
1,738 reviews
9.2
Wonderful
4,059 reviews
9.0
Wonderful
1,638 reviews
The price is ฿5,869
฿6,746 total
includes taxes & fees
16 Nov - 17 Nov
The price is ฿6,225
฿7,155 total
includes taxes & fees
8 Nov - 9 Nov
The price is ฿5,371
฿6,174 total
includes taxes & fees
22 Nov - 23 Nov
The price is ฿5,090
฿5,851 total
includes taxes & fees
9 Nov - 10 Nov
The price is ฿4,256
฿4,892 total
includes taxes & fees
23 Nov - 24 Nov
  • Yes, Breakfast included
  • Yes, Pool
  • No Spa
  • Yes, Pet-friendly
  • Yes, WiFi included
  • Yes, Parking
  • No Breakfast included
  • Yes, Pool
  • No Spa
  • No Pet-friendly
  • Yes, WiFi included
  • Yes, Parking
  • Yes, Breakfast included
  • Yes, Pool
  • No Spa
  • Yes, Pet-friendly
  • Yes, WiFi included
  • Yes, Parking
  • No Breakfast included
  • Yes, Pool
  • No Spa
  • No Pet-friendly
  • Yes, WiFi included
  • Yes, Parking
  • No Breakfast included
  • Yes, Pool
  • Yes, Spa
  • No Pet-friendly
  • Yes, WiFi included
  • Yes, Parking

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.
See properties

Top Shelter Island Hotel Reviews

A table with a fire feature, a charcuterie board, and two glasses of wine, overlooking a marina with boats.
Bay Club Hotel & Marina

Bay Club Hotel & Marina

Bay Club Hotel & Marina
Point Loma

10/10 Excellent

Greatly hotel, this was our second stay here and it didn’t disappoint! It’s a perfect location for getting around with lots close by! The pool and hot tub were great and not too crowded! We highly recommend and will definitely be back!!!!!
United Kingdom
Laura
Reviewed November 3, 2026
Bay Club Hotel & Marina

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.