Boutique hotel vacation rentals in San Juan County

Find and book unique boutique hotel rentals on Airbnb

Top-rated boutique hotel rentals in San Juan County

Guests agree: these boutique hotel rentals are highly rated for location, cleanliness, and more.

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Guest favorite

Hotel room in Friday Harbor

5 out of 5 average rating, 75 reviews

Private guesthouse w/ hot tub & breathtaking views

Your private guesthouse awaits at ~ Inn at Saltwater Farm ~ a modern, Scandinavian-style, boutique inn situated on 162 wild and beautiful acres just outside the town of Friday Harbor. Escape to your separate and private guesthouse with breathtaking views, modern amenities, and miles of trails, gardens, and natural beauty to explore. Cedar hot tub in the deck overlooking the Salish Sea, outdoor shower, and pet friendly for friendly pets! KING bedroom + QUEEN loft + DOUBLE sleeper sofa + bthrm.

Superhost

Hotel room in Friday Harbor

4.94 out of 5 average rating, 17 reviews

Private suite w/ exceptional views & soaking tub

Your exceptional private suite awaits at ~ Inn at Saltwater Farm ~ a modern, Scandinavian farm-style boutique inn, situated on 162 wild and beautiful acres just outside the town of Friday Harbor. Escape to your luxurious suite atop the architectural award-winning Inn, complete with large bathroom and soaking tub, separate living area with kitchenette, modern amenities, and miles of trails, gardens, and natural beauty to explore. KING bedroom + DOUBLE sleeper sofa + Living area + bathroom.

Guest favorite

Hotel room in Friday Harbor

4.99 out of 5 average rating, 95 reviews

Private guesthouse immersed in nature

Your private guesthouse awaits at ~ Inn at Saltwater Farm ~ a modern, Scandinavian-style, boutique inn situated on 162 wild and beautiful acres just outside the town of Friday Harbor. Escape to your separate and private guesthouse with breathtaking views, modern amenities, and miles of trails, gardens, and natural beauty to explore. Private deck & floor-to-ceiling windows with a cozy & intimate woodsy view. Wheelchair accessible. KING bedroom + QUEEN loft + DOUBLE sleeper sofa + bathroom.

Guest favorite

Hotel room in Friday Harbor

4.98 out of 5 average rating, 57 reviews

Private guesthouse w/ deck & breathtaking views

Your private guesthouse awaits at ~ Inn at Saltwater Farm ~ a modern, Scandinavian-style, boutique inn situated on 162 wild and beautiful acres just outside the town of Friday Harbor. Escape to your separate and private guesthouse with breathtaking views, modern amenities, and miles of trails, gardens, and natural beauty to explore. Private deck overlooking the Salish Sea, outdoor shower, and pet-friendly for friendly pets! KING bedroom + QUEEN loft + DOUBLE sleeper sofa + bathroom.

Guest favorite

Hotel room in Friday Harbor

4.98 out of 5 average rating, 55 reviews

Private guesthouse surrounded by majestic firs

Your private guesthouse awaits at ~ Inn at Saltwater Farm ~ a modern, Scandinavian-style, boutique inn situated on 162 wild and beautiful acres just outside the town of Friday Harbor. Escape to your separate and private guesthouse with breathtaking views, modern amenities, and miles of trails, gardens, and natural beauty to explore. Light & bright, private deck, floor-to-ceiling windows & an intimate woodsy view. KING bedroom + QUEEN loft + DOUBLE sleeper sofa + bathroom.

Hotel room in Friday Harbor

4.59 out of 5 average rating, 86 reviews

Wayfarers Guest House. Room #4, the Forecastle

Thank you for finding the Wayfarers Rest, providing comfortable and convenient lodging for active travelers since 1999. Room 4 is a private room that can sleep only 2, all linens provided. The common areas you will share with other guests (fully equipped kitchen, dining, living room and bathrooms) Wayfarers Rest is located just 4 blocks from the ferry terminal and two blocks from main St., easy walking. Free Wi-Fi, parking & chicken eggs.

Guest favorite

Hotel room in Lopez Island

4.88 out of 5 average rating, 50 reviews

~VintageLuxury~ SoakingTub Fireplace King Bed WiFi

✔ No Cleaning Fees ✔ Super Fast WIFI ✔ Fireplace ✔ Full Bathroom w. Soaking Tub ✔ In Room Coffee + Decaf & Tea ✔ Leather couch + King Sleigh Bed ✔ Access to All Common Spaces at Edenwild Boutique Hotel ✔ 24/7 Staff that are here when you need them and never when you don't :) ✔ TV Free Property- Bring your Tablet for Movies ✔ Free Parking Our commitment to you has made us TripAdvisors #1 Hotel in the San Juan Islands.

Superhost

Hotel room in Friday Harbor

5 out of 5 average rating, 3 reviews

Unique private suite w/ forest & meadow views

Your unique 700+ sqft suite awaits at ~ at Saltwater Farm ~ a modern, Scandinavian farm-style abode, situated on 162 wild and beautiful acres just outside the town of Friday Harbor. Escape to your large private suite above our stunning new barn with kitchen, modern amenities, DSL WiFi internet, and miles of trails, gardens, and natural beauty to explore. KING bedroom + 2 DOUBLE sleeper sofa loft + TWIN bedroom + bathroom

Guest favorite

Hotel room in Lopez Island

4.85 out of 5 average rating, 33 reviews

•Walk to Everything• Wi-Fi •Island Hotel•

Your Suite awaits at ~The Edenwild Boutique Inn~ Island Vintage meets modern amenities. Think friendly, not stuffy with exceptional service. QUEEN Bed + Queen Sleeper Sofa. Bathroom with standup shower, plush towels and premium bath products. DIFFERENT than other AirBnBs where you feel like your crashing. We think of every aspect of your stay and our staff is always there when you need us and never when you don’t.

Guest favorite

Hotel room in Friday Harbor

4.98 out of 5 average rating, 41 reviews

Cedar & Mandala two bedroom suite at Juniper Lane

Juniper Lane Guest House, a hip and unique boutique Inn on San Juan Island. This unique Friday Harbor accommodations is a custom crafted bold mosaic of exotic woods, tile, art, and color. Nestled on the edge of Friday Harbor overlooking Beaverton Valley it has a rural feel yet is still close to town. This Boutique Inn offers a variety of accommodations that are “brilliant and affordable” for everyone.

Guest favorite

Hotel room in Lopez Island

4.92 out of 5 average rating, 39 reviews

Romantic Island Hotel with Breathtaking Sunsets

✔ Super Fast WIFI ✔ In Room Coffee + Decaf & Tea ✔ Full Bathroom ✔ Private Covered Porch ✔ Access to All Common Spaces at Edenwild Boutique Hotel ✔ 24/7 that are here when you need them and never when you don't :) ✔ Walk to shops, restaurants, and beaches. The Edenwild is a 10 room Boutique Hotel that is Elegant as well as friendly. Your privacy and comfort is our top priority.

Guest favorite

Hotel room in Lopez Island

4.92 out of 5 average rating, 103 reviews

•Sweet Island Hotel• Fireplace, Soaking Tub, WIFI

✔ Super Fast WIFI ✔ Fireplace ✔ In Room Coffee + Decaf & Tea ✔ Full Bathroom w. Soaking Tub ✔ 24/7 Staff That There When You Need Them and Never When You Don't :) ✔ Access to All Common Spaces at Edenwild Boutique Hotel ✔ Onsite Bicycle and Kayak rentals We think of every aspect of your stay, and our staff is always there when you need us and never when you don’t.