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Last Minute Hot Rate® Hotel Deals in San Juan Island

We Hide Hotel Names So You Can Find 4-Star Hotels At 2-Star Prices. Choose the Location, Star Rating & Amenities. Let Hotwire Find You the Best Deal. Book Today!

Hot Rate® Hotel

3.5-star Hotel in Lynden
3.5 out of 5

3.5-star Hotel

in Lynden
39 miles from San Juan Island
$112
per night
$136 total
incl. taxes & fees
3.5-star Hotel in Lynden

Hot Rate® Hotel

3-star Hotel in Victoria North
3 out of 5

3-star Hotel

in Victoria North
15 miles from San Juan Island
$115
per night
$154 total
incl. taxes & fees
3-star Hotel in Victoria North

Hot Rate® Hotel

3-star Hotel in Victoria North
3 out of 5

3-star Hotel

in Victoria North
15 miles from San Juan Island
$121
per night
$160 total
incl. taxes & fees
3-star Hotel in Victoria North

Hot Rate® Hotel

3.5-star Hotel in Downtown Victoria
3.5 out of 5

3.5-star Hotel

in Downtown Victoria
16 miles from San Juan Island
$122
per night
$161 total
incl. taxes & fees
3.5-star Hotel in Downtown Victoria
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Choose from 778 San Juan Island Hotel Deals

Anacortes Ship Harbor Inn
Anacortes Ship Harbor Inn
3 out of 5
5316 Ferry Terminal Road, Anacortes, WA
  • 21 min drive from Roche Harbor Marina
The price is $119 per night from Apr 22 to Apr 23
$119
per night
Apr 22 - Apr 23
Stay at this 3-star hotel in Anacortes. Enjoy free breakfast, free WiFi, and free parking. Our guests praise the helpful staff and the clean rooms in our reviews. ...
8.8/10 Excellent! (1,000 reviews)
"This is a very pleasant unit with a view of the water."

Reviewed on Apr 16, 2024

Anacortes Ship Harbor Inn
Friday Harbor Suites
Friday Harbor Suites
2.5 out of 5
680 Spring Street, Friday Harbor, WA
  • 13 min drive from Roche Harbor Marina
The price is $194 per night from May 19 to May 20
$194
per night
May 19 - May 20
Stay at this hotel in Friday Harbor. Enjoy free WiFi, free parking, and a free ferry terminal shuttle. Our guests praise the helpful staff and the clean rooms ...
8.2/10 Very Good! (754 reviews)
"we loved loved our 1 night stay. the bed configuration worked so well for our family of 4 with 2 kids. the rooms were clean and the kitchen was stocked with plates and spoons and microwave and fridge. Only small complaint was there was no Keurig coffee in the room, i had to go downstairs to get coffee. ..."

Reviewed on Apr 16, 2024

Friday Harbor Suites
Earthbox Inn & Spa
Earthbox Inn & Spa
2.5 out of 5
410 Spring Street, Friday Harbor, WA
  • 13 min drive from Roche Harbor Marina
The price is $210 per night from Apr 23 to Apr 24
$210
per night
Apr 23 - Apr 24
Stay at this spa hotel in Friday Harbor. Enjoy free WiFi, free parking, and a full-service spa. Our guests praise the pool and the helpful staff in our reviews. ...
8.6/10 Excellent! (776 reviews)
Very nice place!
"It was incredible! Everything was so amazing and we will definitely be staying again!!! The only criticism I would have is the floors were a little bit dirty, they did make the bottoms of our feet turn dark, however, this to us is a very minor thing, just something to note! Our stay though was absolutely ..."

Reviewed on Apr 15, 2024

Earthbox Inn & Spa
Snug Harbor Resort
Snug Harbor Resort
2.5 out of 5
1997 Mitchell Bay Rd, Friday Harbor, WA
  • 7 min drive from Roche Harbor Marina
The price is $215 per night from Apr 24 to Apr 25
$215
per night
Apr 24 - Apr 25
Stay at this hotel in Friday Harbor. Enjoy free WiFi, free parking, and a marina. Our guests praise the helpful staff and the clean rooms in our reviews. Popular ...
9.8/10 Exceptional! (277 reviews)
"Clean and cozy place to stay. Not much eating places around due to off season. Super beautiful view and quiet though."

Reviewed on Apr 12, 2024

Snug Harbor Resort
The Orca Inn
The Orca Inn
2 out of 5
770 Mullis St., Friday Harbor, WA
  • 14 min drive from Roche Harbor Marina
The price is $150 per night from Apr 20 to Apr 21
$150
per night
Apr 20 - Apr 21
Stay at this motel in Friday Harbor. Enjoy free WiFi, free parking, and a picnic area. Our guests praise the helpful staff and the clean rooms in our reviews. ...
7.4/10 Good! (785 reviews)
"Good stay for the price"

Reviewed on Apr 17, 2024

The Orca Inn
Tucker House Inn
Tucker House Inn
4 out of 5
275 C Street, Friday Harbor, WA
  • 13 min drive from Roche Harbor Marina
The price is $203 per night from Apr 24 to Apr 25
$203
per night
Apr 24 - Apr 25
Stay at this 4-star beach B&B in Friday Harbor. Enjoy free WiFi, free parking, and a full-service spa. Popular attractions Whale Museum and San Juan Islands ...
9.2/10 Wonderful! (212 reviews)
"Last minute reservation. Such a great time and location. Would definitely recommend!"

Reviewed on Apr 17, 2024

Tucker House Inn
Friday Harbor House
Friday Harbor House
3.5 out of 5
130 West Street, Friday Harbor, WA
  • 13 min drive from Roche Harbor Marina
The price is $309 per night from Apr 21 to Apr 22
$309
per night
Apr 21 - Apr 22
Stay at this 3.5-star business-friendly hotel in Friday Harbor. Enjoy free WiFi, free parking, and breakfast. Popular attractions Whale Museum and San Juan Islands ...
9.4/10 Exceptional! (186 reviews)
"Everything about our stay has been incredible! The concierge is helpful, the views amazing and everything you would need in walking distance. We will recommend this hotel to everyone! We can’t wait to come back!!"

Reviewed on Apr 14, 2024

Friday Harbor House
Bird Rock Hotel
Bird Rock Hotel
2 out of 5
35 First Street, Friday Harbor, WA
  • 13 min drive from Roche Harbor Marina
The price is $145 per night from Apr 23 to Apr 24
$145
per night
Apr 23 - Apr 24
Stay at this hotel in Friday Harbor. Enjoy free WiFi, a terrace, and daily housekeeping. Our guests praise the clean rooms in our reviews. Popular attractions ...
8.6/10 Excellent! (307 reviews)
"Cool old building with modern updates. The remote check in was clear and smooth.We received a couple texts from staff checking in during our stay, so it still felt very personable. Would highly recommend."

Reviewed on Nov 18, 2023

Bird Rock Hotel
Trumpeter Inn
Trumpeter Inn
3 out of 5
318 Trumpeter Way, Friday Harbor, WA
  • 13 min drive from Roche Harbor Marina
The price is $160 per night from Apr 21 to Apr 22
$160
per night
Apr 21 - Apr 22
Stay at this 3-star B&B in Friday Harbor. Enjoy free breakfast, free WiFi, and free parking. Our guests praise the breakfast and the comfy beds in our reviews. ...
9.8/10 Exceptional! (182 reviews)
"Was a great stay. Would come back"

Reviewed on Apr 7, 2024

Trumpeter Inn
Roche Harbor Resort
Roche Harbor Resort
3 out of 5
248 Reuben Memorial Dr, Friday Harbor, WA
  • 1 min walk from Roche Harbor Marina
Stay at this 3-star spa resort in Friday Harbor. Enjoy an outdoor pool, 3 restaurants, and a beach locale. Popular attractions Roche Harbor Marina and San Juan ...
9/10 Wonderful! (353 reviews)
"A stay at Roche Harbor is a different experience. Early March is considered off season, so we had the place rather to ourselves. Still the terrific breakfast shop was open for business, serving the best donuts on the planet, and the view of the marina fabulous as always."

Reviewed on Mar 24, 2024

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Roche Harbor Resort
Inn to the Woods B&B
Inn to the Woods B&B
3.5 out of 5
46 Elena Drive, Friday Harbor, WA
  • 6 min drive from Roche Harbor Marina
Stay at this 3.5-star B&B in Friday Harbor. Enjoy free breakfast, free WiFi, and free parking. Popular attractions Reuben Tarte Memorial Park and Mt. Grant Preserve ...
9.8/10 Exceptional! (68 reviews)
"Greatu stay. Clean, friendly staff. Quiet place for any occasion. The island is beautiful"

Reviewed on Mar 19, 2024

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Inn to the Woods B&B
Majestic Inn & Spa
Majestic Inn & Spa
4 out of 5
419 Commercial Avenue, Anacortes, WA
  • 19 min drive from Roche Harbor Marina
The price is $144 per night from Apr 28 to Apr 29
$144
per night
Apr 28 - Apr 29
Stay at this 4-star spa hotel in Anacortes. Enjoy free WiFi, free parking, and a full-service spa. Our guests praise the breakfast and the restaurant in our ...
9.2/10 Wonderful! (999 reviews)
"All staff members were so kind and polite. Room was super clean and modern. Quiet also! The dining room was very comfortable and food was delicious, best coffee and granola"

Reviewed on Apr 16, 2024

Majestic Inn & Spa
See all 778 properties in San Juan Island
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.

HOTW-Hotel-Deals-726-959@2x.jpg (1918×258)*Savings based on Hot Rate® hotel bookings as compared with the lowest published rates found on leading retail travel sites. Hot Rates are different from retail rates. With Hot Rates you enter the date, location and star rating. Hotel revealed only after booking. All bookings final.

Find cheap hotels in San Juan Island

You’re not an average traveler—and Hotwire knows it. Your wanderlust takes you off the beaten path to discover unique adventures and every travel destination’s lesser-known tourist scenes. Hotwire has the hookup! Book your San Juan Island hotel with Hotwire to complete your one-of-a-kind travel checklist.

For you, intrepid voyager, Hotwire has a large selection of the best hotels in San Juan Island.

Choosing the right hotel in Washington has everything to do with the way you want your trip to go. If you’ve scribbled a few obscure destinations on your itinerary, you probably already have a good sense of how your getaway is taking shape. Lean into that by booking one of San Juan Island’s 778 hotels. Choose the one that best catches your trip’s tourist drift.

If you’re traveling during the week for business, Hotwire can score you a luxury hotel for as low as $112. In town for pleasure? Hotwire still has you covered. If you’re in the mood for a quick last-minute weekend getaway or spa retreat, you can get up to 60% San Juan Island hotel deals at the last minute.

While traveling, where you stay plays a major role in your overall vacation enjoyment. Choosing the right hotel is just as important as making sure you book the right flight and car rental. If you’re traveling with family or friends, you may need to book a hotel with connecting rooms. If you enjoy an elegant and relaxing hotel ambiance, opt for one of Hotwire’s luxury hotels in San Juan Island. No matter your reason for visiting San Juan Island, with Hotwire’s large selection of hotels in the area, you’re sure to book a hotel that meets all your accommodation needs.

Frequently Asked Questions About San Juan Island hotels

Where can I find the best last-minute travel deals?

If you’re traveling in the spirit of spontaneity, you’ll love the idea of leaving your exact hotel choice up to chance. With Hotwire Hot Rates, you can save up to 60% off your next flight, hotel, or car rental. Just plug in your general preferences and let Hotwire choose last-minute hotel deals in San Juan Island for as low as $112.

How many hotels are there in San Juan Island?

With over 778 hotels in San Juan Island, you’re sure to find one that best matches your travel mood. When you book with Hotwire, you can score a stellar home away from home for as low as $112.

How to find cheap car rentals in San Juan Island?

Finding a cheap car rental deal in San Juan Island is as easy as scoring cheap hotels in San Juan Island. Hotwire partners with top-of-the-line car rental companies to bring you a large selection of affordable options. Whether you’re in need of a large SUV for the entire family or a more compact but stylish vehicle, Hotwire has you covered. You can even save up to 60% off a car rental deal if you book a Hotwire Hot Rate at the last minute.

Is it safe to travel to San Juan Island now?

With recent COVID-19 closures and reopenings, many people are wondering, “Is it safe to travel to San Juan Island right now?” When it’s time to book your getaway, be sure to check out the most up-to-date information on all safety measures, any restrictions, and guidance on traveling during the coronavirus pandemic.