Find Hotels with an Indoor Pool in Clayton, NY from CA $99

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Check prices for these dates

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Nov 14 - Nov 15
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Nov 15 - Nov 16
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Nov 20 - Nov 22
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Nov 27 - Nov 29

Our top choices for Clayton hotels with an indoor pool

An outdoor seating area with a fire pit, chairs, and tables.

1. 1000 Islands Harbor Hotel

1000 Islands Harbor Hotel
3.5 star property
Clayton
9.4 out of 10, Exceptional, (1,000 reviews)
  • cleanliness
    Plunge into riverside relaxation at this hotel's indoor pool retreat with scenic 1000 Islands vistas.
The price is CA $184
CA $204 total
includes taxes & fees
Nov 17 - Nov 18
1000 Islands Harbor Hotel
A marina with several boats docked, a clear sky, and a distant shoreline with trees and a castle-like structure.

2. Riveredge Resort

Riveredge Resort
3.5 star property
Alexandria Bay Downtown
8.4 out of 10, Very good, (1,003 reviews)
  • cleanliness
    Dive into the indoor pool sanctuary overlooking the river with sunset views and tiki bar access.
The price is CA $141
CA $157 total
includes taxes & fees
Nov 20 - Nov 21
Riveredge Resort
A hotel lobby with a stone wall, green upholstered chairs, a round white table, and a beige sofa.

3. Fairfield Inn & Suites Watertown Thousand Islands

Fairfield Inn & Suites Watertown Thousand Islands
3.0 star property
Watertown
9.2 out of 10, Wonderful, (779 reviews)
  • cleanliness
    Make a splash in the indoor pool year-round at this suburban hotel with clean, comfy rooms.
The price is CA $166
CA $184 total
includes taxes & fees
Dec 10 - Dec 11
Fairfield Inn & Suites Watertown Thousand Islands
A Holiday Inn Express & Suites hotel with a covered entrance, multiple floors, and landscaped gardens.

4. Holiday Inn Express Hotel & Suites Watertown-Thousand Island by IHG

Holiday Inn Express Hotel & Suites Watertown-Thousand Island by IHG
2.5 star property
Watertown
9.2 out of 10, Wonderful, (1,002 reviews)
  • cleanliness
    Dive into a world of year-round aquatic bliss in this hotel's pristine indoor pool oasis.
The price is CA $128
CA $143 total
includes taxes & fees
Dec 12 - Dec 13
Holiday Inn Express Hotel & Suites Watertown-Thousand Island by IHG
A hotel lobby with a bar area, seating arrangements, and a television mounted on the wall.

5. Hampton Inn Watertown

Hampton Inn Watertown
2.5 star property
Watertown
9.2 out of 10, Wonderful, (1,000 reviews)
  • cleanliness
    Swim year-round at this freshly renovated hotel with an indoor pool, fitness centre, and complimentary breakfast buffet.
The price is CA $139
CA $155 total
includes taxes & fees
Nov 22 - Nov 23
Hampton Inn Watertown
A hotel room with a large bed, a nightstand, a lamp, a chair, and a window with curtains.

6. Comfort Inn & Suites Watertown - 1000 Islands

Comfort Inn & Suites Watertown - 1000 Islands
2.5 star property
Watertown
8.6 out of 10, Excellent, (1,040 reviews)
  • cleanliness
    Swim in year-round bliss with an indoor pool and fitness centre for a refreshing getaway.
The price is CA $132
CA $147 total
includes taxes & fees
Dec 11 - Dec 12
Comfort Inn & Suites Watertown - 1000 Islands
A gazebo with a stone fire pit in the center, surrounded by outdoor seating and a brick pathway.

7. Hilton Garden Inn Watertown/Thousand Islands

Hilton Garden Inn Watertown/Thousand Islands
3.0 star property
Watertown
9.2 out of 10, Wonderful, (1,000 reviews)
  • cleanliness
    Aquatic tranquility awaits at this hotel with an inviting indoor pool and relaxing hot tub perfect for unwinding year-round.
The price is CA $190
CA $211 total
includes taxes & fees
Dec 12 - Dec 13
Hilton Garden Inn Watertown/Thousand Islands
An indoor swimming pool with clear water, surrounded by lounge chairs and tables, and large windows allowing natural light.

8. Adirondack Efficiencies Watertown

Adirondack Efficiencies Watertown
2.0 star property
Watertown
6.8 out of 10, (644 reviews)
  • cleanliness
    Relax at the indoor oasis where cozy pool loungers invite you to unwind after adventure.
The price is CA $100
CA $111 total
includes taxes & fees
Nov 17 - Nov 18
Adirondack Efficiencies Watertown
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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Top Clayton Hotel Reviews

An outdoor seating area with a fire pit, chairs, and tables.
1000 Islands Harbor Hotel

1000 Islands Harbor Hotel

1000 Islands Harbor Hotel
Clayton

10/10 Excellent

Wonderful location, river view, beautifully decorated for fall.
Canada
maria
Reviewed October 1, 2026
1000 Islands Harbor Hotel

Frequently Asked Questions

What are a few well-liked hotels in Clayton that offer indoor pools?

1000 Islands Harbor Hotel is a short walk from 1000 Islands River Rat Cheese and features an indoor pool, as well as free self parking, complimentary wireless internet access, flat-screen televisions, and laundry facilities.

What does Clayton have to offer in addition to hotels with indoor pools?

Enjoy the excursions and waterfront in Clayton accompanied by accommodation with an indoor pool for some easy access R&R.

What is there to do in Clayton?

After a few refreshing laps in the pool, head out and visit some of the notable attractions in and around Clayton. Consider a trip to 1000 Islands River Rat Cheese, Clayton Marina, and Lake Ontario. A few other contenders are Thousand Islands Museum, Antique Boat Museum, and The Clayton Opera House.

Why should I choose a hotel with an indoor pool for my stay in Clayton?

An accommodation with an indoor pool is perfect for a weekend in Clayton in all seasons, as it offers a lovely way to spend a few afternoons should the weather turn. If you’re searching for a hotel to take the children to, one with an indoor pool is a must.

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