A lakeside lodge with a wooden pier, surrounded by lush greenery and a forested backdrop.

Best Boutique Hotels in San Juan Island

  • Change your mind

    Book hotels with free cancellation

  • Treat yourself

    Sign in to save 10% or more on thousands of hotels
    Sign in

  • Be picky

    Search almost a million properties worldwide

Check availability on San Juan Island Boutique Hotels

Tonight
26 Oct - 27 Oct
Tomorrow
27 Oct - 28 Oct
This weekend
30 Oct - 1 Nov
Next weekend
6 Nov - 8 Nov
No exact matches found, but these alternatives could be just right

Recommended hotels in San Juan Island

A building with a covered outdoor area, red doors, and hanging flower baskets.
A hotel room with two beds, a nightstand with a lamp, a vase with flowers, and a window with curtains.
A two-story building with a balcony, surrounded by a well-maintained garden with various plants and flowers.
A hotel room with a grey armchair, a small round table, a bedside table, a lamp, and a potted plant.

1. Discovery Inn

Discovery Inn
Friday Harbor
United States
Robert
RM695
RM769 total
includes taxes & fees
27 Oct - 28 Oct
Discovery Inn
A wooden cabin interior with a dining table, chairs, and a bench.
A marina with boats docked, surrounded by forested hills and a small building complex.
A cozy cabin interior with a large window overlooking a lake, a fireplace, and a comfortable seating area.
A lodge with multiple cabins, a dock, and a surrounding forest.

2. Snug Harbor Resort

Snug Harbor Resort
Friday Harbor
United States
Amy
RM936
RM1,032 total
includes taxes & fees
1 Nov - 2 Nov
Snug Harbor Resort
A motel with a row of rooms, a parking lot, and blooming flowers in the foreground.
A room with two beds, wooden walls, and a window.
A wooden chair and a wooden dresser in a room with a wooden panel wall.
A bathroom with a shower, a towel rack, and a shelf with a towel.

3. The Orca Inn

The Orca Inn
Friday Harbor
United States
Andrew
RM397
RM439 total
includes taxes & fees
27 Oct - 28 Oct
The Orca Inn
A serene outdoor seating area with a table and chairs, surrounded by lush greenery and a tree.
A grassy area with a pond, trees, and a red chair.
A two-story building with a red door, surrounded by a garden with various plants and flowers.
A dining table set with plates of food, glasses, and a vase of flowers.

4. Trumpeter Inn

Trumpeter Inn
Friday Harbor
United States
Thomas
RM779
RM860 total
includes taxes & fees
27 Oct - 28 Oct
Trumpeter Inn
A waterfront hotel with multiple docked boats, a pier, and a view of the surrounding forested area.
A hotel with a large building, a pond in front, and trees around.
A marina with boats docked in a structured layout, surrounded by water and a distant cityscape.
A serene lakeside setting with string lights, wicker chairs, and a fire pit area.

5. Roche Harbor Resort

Roche Harbor Resort
Friday Harbor
United States
Nicco
RM794
RM920 total
includes taxes & fees
1 Nov - 2 Nov
Roche Harbor Resort
A modern interior with a stone fireplace, hanging lamps, and a sign indicating the property is for sale.
A modern lobby with a reception desk, seating area, and a large window with a view of the sea.
A covered outdoor swimming pool area with a hot tub, benches, and emergency exit signs.
A modern interior with sofas, a table, and hanging plants.

6. Friday Harbor Suites

Friday Harbor Suites
Friday Harbor
United States
Ana
RM688
RM761 total
includes taxes & fees
2 Nov - 3 Nov
Friday Harbor Suites
A living room with a sofa, armchairs, a coffee table, and a fireplace.
A landscaped garden with neatly trimmed hedges, a white picket fence, and a wooden signboard.
A waterfront promenade with benches, a gazebo, and a large white boat docked at a pier.
A building with a sign that reads "OFFICE Gift Shop" at the entrance.

7. Earthbox Inn & Spa

Earthbox Inn & Spa
Friday Harbor
United States
Troy
RM899
RM995 total
includes taxes & fees
1 Nov - 2 Nov
Earthbox Inn & Spa
Two people relaxing by a fire pit with a view of a harbor and a large ship.
A bar area with a large TV screen displaying a landscape, a bookshelf with books and bottles, and leather chairs.
A bar area with shelves of bottles and glasses, a counter with a fruit bowl, and tables with chairs.
A coastal town at dusk with a marina, boats, and a large cruise ship docked.

8. Friday Harbor House

Friday Harbor House
Friday Harbor
United States
Randy
RM1,246
RM1,379 total
includes taxes & fees
1 Nov - 2 Nov
Friday Harbor House
A white building with a balcony, potted plants, and a stone pathway.
A living room with a sectional sofa, a coffee table, a lamp, and a potted plant.
A kitchen with wooden cabinets, a built-in microwave, and a coffee station.
A marina with boats, a cruise ship, and a forested island.

9. Bird Rock Hotel

Bird Rock Hotel
Friday Harbor
United States
Vanessa
RM633
RM701 total
includes taxes & fees
2 Nov - 3 Nov
Bird Rock Hotel
A balcony with a hot tub, two chairs, and a table set with plates, glasses, and a bottle.
A garden with a wooden pergola, flowering plants, and a pathway leading to a house.
A conservatory with a dining table set for four, surrounded by white chairs, and a lamp on the right.
A two-story house with a front porch, a picket fence, and a small garden area.

10. Tucker House Inn

Tucker House Inn
Friday Harbor
United States
Kelly
RM589
RM651 total
includes taxes & fees
2 Nov - 3 Nov
Tucker House Inn
View all properties

Top San Juan Island Hotel Reviews

Explore a world of travel with Expedia