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Marathon Hotel Guide - Boot Key Harbor hotels in Marathon, United States of America.

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Check prices for these dates

Tonight
8 Nov - 9 Nov
Tomorrow
9 Nov - 10 Nov
Next weekend
13 Nov - 15 Nov
In two weeks
20 Nov - 22 Nov

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Our top choices for Boot Key Harbor hotels

A resort with a swimming pool, lounge chairs, and a view of the ocean.

1. Bluegreen Vacations Hammocks at Marathon, Ascend Collection Resort

Bluegreen Vacations Hammocks at Marathon, Ascend Collection Resort
2.5 star property
1.2 km from Boot Key Harbor
9.2 out of 10, Wonderful, (147 reviews)
"It is an excellent place."
United States
Arianna
The price is €190
includes taxes & fees
18 Nov - 19 Nov
Bluegreen Vacations Hammocks at Marathon, Ascend Collection Resort
An aerial view of a resort with a central pool, multiple buildings, and a beach area with sun loungers.

2. Isla Bella Beach Resort & Spa

Isla Bella Beach Resort & Spa
5.0 star property
2.4 km from Boot Key Harbor
9.2 out of 10, Wonderful, (1,302 reviews)
"Amazing hotel"
United States
Yamila
The price is €281
includes taxes & fees
15 Nov - 16 Nov
Isla Bella Beach Resort & Spa
A neatly made bed with a grey and white duvet, a wooden headboard, and a bedside table with a lamp and remote control.

3. Knight's Key Suites

Knight's Key Suites
3.0 star property
2.7 km from Boot Key Harbor
9.0 out of 10, Wonderful, (1,245 reviews)
"We had the pool view..Excellent!"
United States
Brandy
The price is €109
includes taxes & fees
29 Nov - 30 Nov
Knight's Key Suites
A clear blue pool with white lounge chairs and palm trees, overlooking a calm sea.

4. Courtyard by Marriott Faro Blanco Resort, Marathon Florida Keys

Courtyard by Marriott Faro Blanco Resort, Marathon Florida Keys
3.0 star property
0.8 km from Boot Key Harbor
9.0 out of 10, Wonderful, (1,009 reviews)
"Absolutely perfect place to stay."
United States
Keith
The price is €208
includes taxes & fees
2 Dec - 3 Dec
Courtyard by Marriott Faro Blanco Resort, Marathon Florida Keys
A room with a wooden table and chairs, a sliding glass door leading to a balcony, and a blue cooler on the floor.

5. Captain Pips Marina & Hideaway

Captain Pips Marina & Hideaway
3.0 star property
1.2 km from Boot Key Harbor
9.0 out of 10, Wonderful, (1,004 reviews)
"Good location, nice view, easy to park your own boats or rental boats."
United States
Yi
The price is €133
includes taxes & fees
9 Nov - 10 Nov
Captain Pips Marina & Hideaway
Exterior

6. Aqua Lodges at 47th Street Gulfside

Aqua Lodges at 47th Street Gulfside
3.0 star property
1.9 km from Boot Key Harbor
8.8 out of 10, Excellent, (61 reviews)
"Loved our stay at the aqua lodges 10/10 would do it again"
United States
Lauren
The price is €271
includes taxes & fees
9 Nov - 10 Nov
Aqua Lodges at 47th Street Gulfside
An outdoor seating area with wicker furniture and cushions, a thatched-roof structure, and lush greenery.

7. Tropical Cottages

Tropical Cottages
3.0 star property
2.9 km from Boot Key Harbor
8.6 out of 10, Excellent, (1,014 reviews)
"The family running the food truck and tiki hut were great. Felt like we were guests in their home."
United States
Douglas
The price is €100
includes taxes & fees
10 Nov - 11 Nov
Tropical Cottages
A marina with boats docked, a swimming pool, and a building with a blue roof.

8. Faro Blanco Resort Marathon Florida Keys, Curio by Hilton

Faro Blanco Resort Marathon Florida Keys, Curio by Hilton
4.0 star property
1 km from Boot Key Harbor
8.6 out of 10, Excellent, (1,134 reviews)
"Great resort, restaurant and bar!"
United States
Rick
The price is €174
includes taxes & fees
15 Nov - 16 Nov
Faro Blanco Resort Marathon Florida Keys, Curio by Hilton
A nighttime pool area with a clear view of the pool, surrounding palm trees, and a building with a sign.

9. Skipjack Resort & Marina

Skipjack Resort & Marina
3.0 star property
1.7 km from Boot Key Harbor
8.6 out of 10, Excellent, (1,297 reviews)
"Great spot"
Canada
Justin
The price is €197
includes taxes & fees
9 Nov - 10 Nov
Skipjack Resort & Marina
A clear view of a swimming pool with lounge chairs and umbrellas, surrounded by palm trees and a clear sky.

10. Banana Bay Resort & Marina

Banana Bay Resort & Marina
3.0 star property
1.6 km from Boot Key Harbor
7.4 out of 10, Good, (1,001 reviews)
"Staff was friendly and room was awesome."
United States
Alex
The price is €172
includes taxes & fees
12 Nov - 13 Nov
Banana Bay Resort & Marina
A swimming pool surrounded by palm trees and lounge chairs.

11. Tranquility Bay Beachfront Hotel and Resort

Tranquility Bay Beachfront Hotel and Resort
4.0 star property
0.7 km from Boot Key Harbor
8.8 out of 10, Excellent, (1,001 reviews)
"Perfect place for a family vacation. We loved everything about it"
United States
Shauna
The price is €267
includes taxes & fees
1 Dec - 2 Dec
Tranquility Bay Beachfront Hotel and Resort
A spacious living area with a gray sectional sofa, wooden beams, and a ceiling fan.

12. Aqua Lodge Rentals At Coconut Cay

Aqua Lodge Rentals At Coconut Cay
3.5 star property
3.9 km from Boot Key Harbor
9.6 out of 10, Exceptional, (239 reviews)
"Never stayed in a houseboat before. It was a novel experience!"
United States
Susan
The price is €234
includes taxes & fees
15 Nov - 16 Nov
Aqua Lodge Rentals At Coconut Cay
A hammock on a sandy beach with palm trees, a pool, and lounge chairs in the background.

13. Seascape Resort & Marina

Seascape Resort & Marina
3.0 star property
4.1 km from Boot Key Harbor
9.4 out of 10, Exceptional, (648 reviews)
"We loved the beach, pool and docks. The atmosphere was amazing!"
United States
Jane
The price is €172
includes taxes & fees
8 Dec - 9 Dec
Seascape Resort & Marina
A wooden deck with a pool and chairs overlooking a beach with palm trees.

14. Grassy Flats Resort & Beach Club

Grassy Flats Resort & Beach Club
4.0 star property
15.6 km from Boot Key Harbor
9.4 out of 10, Exceptional, (504 reviews)
"Loved everything about this place!"
United States
Amanda
The price is €229
includes taxes & fees
7 Dec - 8 Dec
Grassy Flats Resort & Beach Club
A covered outdoor seating area with tables and chairs, overlooking a body of water and a distant shoreline.

15. Bonefish Bay Motel

Bonefish Bay Motel
2.5 star property
8.1 km from Boot Key Harbor
9.2 out of 10, Wonderful, (668 reviews)
"The staff were phenomenal especially the office staff. Very clean room Superb bathroom Free use if the kayaks Pool was nice."
United States
Mark
The price is €117
includes taxes & fees
1 Dec - 2 Dec
Bonefish Bay Motel
A balcony with a view of the ocean, a round table, and two chairs.

16. Fairfield Inn & Suites by Marriott Marathon Florida Keys

Fairfield Inn & Suites by Marriott Marathon Florida Keys
3.0 star property
8.3 km from Boot Key Harbor
9.2 out of 10, Wonderful, (1,233 reviews)
"Great location, walked to tiki bar and restaurants."
United States
Katelyn
The price is €163
includes taxes & fees
15 Nov - 16 Nov
Fairfield Inn & Suites by Marriott Marathon Florida Keys
A pool area with lounge chairs, a thatched-roof structure, and a view of the ocean.

17. Hampton Inn Marathon - Florida Keys

Hampton Inn Marathon - Florida Keys
2.5 star property
8.5 km from Boot Key Harbor
9.0 out of 10, Wonderful, (1,004 reviews)
"The staff were very helpful and accommodating whenever we had a request. The breakfast was hot and plenty of options would definitely stay with you again."
United States
Marie
The price is €156
includes taxes & fees
29 Nov - 30 Nov
Hampton Inn Marathon - Florida Keys
A beach view through a window with white curtains, a wooden deck, and beach chairs.

18. Glunz Ocean Beach Hotel & Resort

Glunz Ocean Beach Hotel & Resort
3.0 star property
8.3 km from Boot Key Harbor
9.0 out of 10, Wonderful, (1,000 reviews)
"This hotel was amazing. Very well maintained, the amenities were plentiful and the staff was very helpful and welcoming. Will definitely be staying here again."
United States
Brian
The price is €240
includes taxes & fees
9 Nov - 10 Nov
Glunz Ocean Beach Hotel & Resort
A covered outdoor area with a view of a pool and palm trees.

19. Kingsail Resort

Kingsail Resort
2.0 star property
3.6 km from Boot Key Harbor
8.6 out of 10, Excellent, (1,134 reviews)
"The customer service was great, we had no issues and enjoyed the room."
United States
Nate
The price is €96
includes taxes & fees
3 Dec - 4 Dec
Kingsail Resort
A marina with a dock, a boat, and a row of buildings with large windows.

20. Coconut Cay Resort & Marina

Coconut Cay Resort & Marina
3.0 star property
3.7 km from Boot Key Harbor
8.6 out of 10, Excellent, (1,081 reviews)
"It was our first time to the Keys, and it served as a great spot to venture out from. Very comfortable rooms. The only issue we had was that the pool was being renovated, so check on that, if a pool is your deciding factor."
United States
Robert
The price is €76
includes taxes & fees
7 Dec - 8 Dec
Coconut Cay Resort & Marina
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.
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Compare popular hotels close to Boot Key Harbor

Property
Property class
Guest rating
Breakfast included
Pool
Spa
Pet-friendly
WiFi included
A resort with a swimming pool, lounge chairs, and a view of the ocean.
Bluegreen Vacations Hammocks at Marathon, Ascend Collection Resort
2.5 star property
9.2
Wonderful
147 reviews
View
An aerial view of a resort with a central pool, multiple buildings, and a beach area with sun loungers.
Isla Bella Beach Resort & Spa
5.0 star property
9.2
Wonderful
1,302 reviews
View
A neatly made bed with a grey and white duvet, a wooden headboard, and a bedside table with a lamp and remote control.
Knight's Key Suites
3.0 star property
9.0
Wonderful
1,245 reviews
View
A clear blue pool with white lounge chairs and palm trees, overlooking a calm sea.
Courtyard by Marriott Faro Blanco Resort, Marathon Florida Keys
3.0 star property
9.0
Wonderful
1,009 reviews
View
A room with a wooden table and chairs, a sliding glass door leading to a balcony, and a blue cooler on the floor.
Captain Pips Marina & Hideaway
3.0 star property
9.0
Wonderful
1,004 reviews
View

Other attractions near Boot Key Harbor

A sea turtle swimming underwater.
Photo by Cider Hoff
Open Photo by Cider Hoff

The Turtle Hospital

9.2/10 (946 reviews)
Explore the campus of The Turtle Hospital as part of your travels around Marathon. Stroll along the area's seaside or simply savour its seafood restaurants.
See properties

Top Boot Key Harbor Hotel Reviews

An aerial view of a resort with a central pool, multiple buildings, and a beach area with sun loungers.
Isla Bella Beach Resort & Spa

Isla Bella Beach Resort & Spa

Isla Bella Beach Resort & Spa
Marathon

10/10 Excellent

Sea view, amazing staff , beautiful rooms
Ireland
donna
Reviewed September 12, 2025
Isla Bella Beach Resort & Spa

Frequently Asked Questions

What's the area like around Boot Key Harbor?

Boot Key Harbor is located in Marathon. Travellers love the area for its beautiful beaches, top seafood restaurants and dolphin watching opportunities. If you're looking for a convenient place to stay, take a look at the 216 hotels and other accommodation options you'll find within a mile.

Where is the best place to stay near Boot Key Harbor?

Faro Blanco Resort Marathon Florida Keys, Curio by Hilton is one of the top choices for your stay based on our traveller data, and this resort offers a marina and 4 outdoor pools. It's located just a short 0.6 mi (1 km) from Boot Key Harbor. Other good options within a short distance include Tranquility Bay Beachfront Hotel and Resort and Courtyard by Marriott Faro Blanco Resort, Marathon Florida Keys.

How many hotels will I find close to Boot Key Harbor?

Expedia has 216 hotels and other accommodation options within a mile from Boot Key Harbor.

If I need to cancel the hotel reservation for my stay near Boot Key Harbor, will I receive a refund?

Yes! Most hotel reservations are refundable provided that you cancel before the accommodation's cancellation deadline, which in most cases is within 24 or 48 hours of your arrival date. If you have a reservation that's non-refundable, it might still be possible to cancel it and be given a refund within a 24-hour period of your booking. Add dates, click "Search", then filter by "fully refundable" to review top deals close to Boot Key Harbor.

What can I see and do near Boot Key Harbor?

Lounge by the water at Sombrero Beach and Sunset Park Beach. Attractions like Shady Palm Art Gallery and Crane Point Museum and Nature Center highlight the local culture. Explore nature at Vaca Key and Pigeon Key.