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Boutique hotel vacation rentals in San Juan County

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Top-rated boutique hotel rentals in San Juan County

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

Guest favorite
Boutique hotel in Friday Harbor
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.
Apr 9 – 16
$309 per night
Boutique hotel in Friday Harbor
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.
Oct 25 – Nov 1
$81 per night
Guest favorite
Boutique hotel in Friday Harbor
Juniper Lane Guest House private room
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.
May 2 – 9
$134 per night

Popular amenities for San Juan County boutique hotel rentals

Family-friendly boutique hotels rentals

Guest favorite
Boutique hotel in Lopez Island
•LargeHotelSuite• King+Queen Bed Family or Friends
Oct 19 – 26
$290 per night
Guest favorite
Boutique hotel in Lopez Island
•Walk to Everything• Wi-Fi •Island Hotel•
Jan 12 – 19
$238 per night
Boutique hotel in Lopez island
•BoutiqueHotel• #1TripAdvisor •WaterviewFireplace•
Dec 2 – 9
$305 per night
Guest favorite
Boutique hotel in Lopez Island
~Sunset Views~ Vintage Luxury w Modern Amenities!
May 6 – 13
$290 per night

Destinations to explore