The Best Hotels Closest to Shelter Island in San Diego - 2026 Updated Prices

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Our top choices for Shelter Island hotels

1. Bay Club Hotel & Marina

0.7 km from Shelter Island

Sandra

฿6,839 total

includes taxes & fees

30 Aug - 31 Aug

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

2.4 km from Shelter Island

Kimberly

฿8,832 total

includes taxes & fees

24 Aug - 25 Aug

3. Hampton Inn & Suites San Diego Airport Liberty Station

2.7 km from Shelter Island

Aimee

฿6,006 total

includes taxes & fees

23 Aug - 24 Aug

4. Courtyard by Marriott San Diego Airport/Liberty Station

2.6 km from Shelter Island

amelinda

฿7,514 total

includes taxes & fees

16 Aug - 17 Aug

5. Humphreys Half Moon Inn

1 km from Shelter Island

alex

฿8,921 total

includes taxes & fees

18 Aug - 19 Aug

6. Best Western Plus Island Palms Hotel & Marina

0.4 km from Shelter Island

Omar

฿6,350 total

includes taxes & fees

27 Aug - 28 Aug

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

2.8 km from Shelter Island

Jamie

฿7,135 total

includes taxes & fees

30 Aug - 31 Aug

8. Hilton San Diego Airport/Harbor Island

2.5 km from Shelter Island

Saranpreet

฿6,923 total

includes taxes & fees

13 Aug - 14 Aug

9. Sea Harbor Hotel

1.4 km from Shelter Island

Ryan

฿4,818 total

includes taxes & fees

26 Aug - 27 Aug

10. DoubleTree by Hilton San Diego Bayside

1.8 km from Shelter Island

Jorge

฿6,446 total

includes taxes & fees

24 Aug - 25 Aug

11. The Monsaraz San Diego, Tapestry Collection by Hilton

1.6 km from Shelter Island

Debbie

฿6,607 total

includes taxes & fees

12 Aug - 13 Aug

Standard Room, 2 Queen Beds, Non Smoking, Microwave | Desk, blackout curtains, iron/ironing board, cots/infant beds

12. Best Western Yacht Harbor Hotel

1.7 km from Shelter Island

Natalia

฿6,427 total

includes taxes & fees

3 Aug - 4 Aug

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

1.2 km from Shelter Island

Scott

฿4,050 total

includes taxes & fees

3 Aug - 4 Aug

14. Kona Kai San Diego

0.2 km from Shelter Island

Edward

฿11,612 total

includes taxes & fees

30 Aug - 31 Aug

15. Comfort Inn San Diego Airport At The Harbor

1.6 km from Shelter Island

adele

฿5,074 total

includes taxes & fees

23 Aug - 24 Aug

Room, 1 King Bed, Non Smoking (Harbor View) | Beach/ocean view

16. Ramada by Wyndham San Diego Airport

1.6 km from Shelter Island

Charlie

฿4,744 total

includes taxes & fees

3 Aug - 4 Aug

Standard Room | Blackout curtains, iron/ironing board (on request), free WiFi

17. Hotel Point Loma

1.5 km from Shelter Island

Avril

฿5,141 total

includes taxes & fees

3 Aug - 4 Aug

18. Hotel Aqua Mar

1.7 km from Shelter Island

Michael

฿4,564 total

includes taxes & fees

30 Aug - 31 Aug

19. Samesun Ocean Beach - Hostel

Ocean Beach, 4.3 km from Shelter Island

linda

฿2,744 total

includes taxes & fees

10 Aug - 11 Aug

Beach nearby, beach umbrellas, beach towels

20. 1906 Lodge

5.9 km from Shelter Island

Malcolm

฿11,420 total

includes taxes & fees

30 Aug - 31 Aug

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Compare popular hotels close to Shelter Island

Property	Property class	Guest rating
Bay Club Hotel & Marina	3.5 star property	9.2 Wonderful 3,774 reviews	View
Homewood Suites by Hilton San Diego Airport/Liberty Station	3.0 star property	9.4 Exceptional 1,605 reviews	View
Hampton Inn & Suites San Diego Airport Liberty Station	2.5 star property	9.2 Wonderful 1,703 reviews	View
Courtyard by Marriott San Diego Airport/Liberty Station	3.0 star property	9.2 Wonderful 1,272 reviews	View
Humphreys Half Moon Inn	3.5 star property	9.2 Wonderful 3,060 reviews	View

Top Shelter Island Hotel Reviews

The Pearl Hotel

10/10 Excellent

"The room was clean and very comfortable. The property's Art Deco look was impressive. Our room air conditioner/heater was a little noisy - we advised the property of this minor, correctable problem."

Wyndham San Diego Bayside

10/10 Excellent

"The hotel staff were incredibly friendly, welcoming, and helpful throughout my stay. They even allowed me a complimentary late checkout after my flight was delayed, which I truly appreciated. I had a wonderful experience and will definitely stay here again in the future. I highly recommend this hotel to my friends and family."

Homewood Suites by Hilton San Diego Airport/Liberty Station

10/10 Excellent

"This is a very nice hotel in a nice area of San diego. Hotel is clean and very updated. Breakfast is above average as far as free hot breakfasts go. Swimming pool is nice. Any staff that we encountered seemed cheerful and friendly. Highly recommend."

Best Western Plus Island Palms Hotel & Marina

8/10 Good

"The room we stayed in needed a deep clean. We stayed in the building in the back near the parking structure. I think it was called the Marina. Wallpaper peeling off the wall. Behind the TV stand complete grossness, and no ventilation in the bathroom. The room as a whole seem as there was lots of moisture within. I have stayed here before but in the newer renovated side. I hope they remodel this building soon."

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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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 40 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 40 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 San Diego Air and Space 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.

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Our top choices for Shelter Island hotels

1. Bay Club Hotel & Marina

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

3. Hampton Inn & Suites San Diego Airport Liberty Station

4. Courtyard by Marriott San Diego Airport/Liberty Station

5. Humphreys Half Moon Inn

6. Best Western Plus Island Palms Hotel & Marina

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

8. Hilton San Diego Airport/Harbor Island

9. Sea Harbor Hotel

10. DoubleTree by Hilton San Diego Bayside

11. The Monsaraz San Diego, Tapestry Collection by Hilton

12. Best Western Yacht Harbor Hotel

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

14. Kona Kai San Diego

15. Comfort Inn San Diego Airport At The Harbor

16. Ramada by Wyndham San Diego Airport

17. Hotel Point Loma

18. Hotel Aqua Mar

19. Samesun Ocean Beach - Hostel

20. 1906 Lodge

Compare popular hotels close to Shelter Island

Top Shelter Island Hotel Reviews

The Pearl Hotel

Other attractions near Shelter Island

Sunset Cliffs Natural Park

Frequently asked questions