Book The Best Hotels in Southeast Minnesota, MN for 2026 from CA $80 - Fully Refundable Options

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Our top choices for Southeast Minnesota hotels

A modern dining area with high tables, chairs, and pendant lighting.

A hotel room with two beds, a desk with a computer, a chair, and a window with a view.

A multi-story hotel with a modern design, featuring a prominent entrance with a covered area and a parking lot in front.

A reception desk with a large digital screen displaying a cityscape and the word "happy."

1. Hampton Inn & Suites Rochester-North

Rochester

Dr. Tim

CA $139

CA $160 total

includes taxes & fees

Oct 24 - Oct 25

A modern indoor patio with a fire feature, seating, and large windows.

A modern living room with a fireplace, large windows, and a flat-screen TV mounted on the wall.

A reception area with a curved reception desk, wooden shelving, and a green moss wall with the text "I ♥ EVEN".

A modern interior with a seating area, a bookshelf, and a window with a view of trees.

2. EVEN Hotel Rochester - Mayo Clinic Area by IHG

Kutzky Park

Rici

CA $174

CA $219 total

includes taxes & fees

Oct 23 - Oct 24

A hotel room with a large bed, a desk with a chair, a window with a view of the outdoors, and two bedside lamps.

A gym with treadmills, elliptical machines, and a stationary bike.

A reception desk with a wooden finish, a large illuminated 'C' sign, and a modern light fixture on the ceiling.

A laundry area with two Whirlpool washers and a dryer, a wooden shelf above, and a white ceiling.

3. Comfort Inn & Suites Rochester South Mayo Clinic

Rochester

Darlene

CA $119

CA $137 total

includes taxes & fees

Nov 2 - Nov 3

A Comfort Inn hotel with a stone facade, a covered entrance, and a parking area.

A spacious lobby with a central seating area, a reception desk, and a fireplace.

A spacious living room with a stone fireplace, blue sofas, and a flat-screen TV.

A modern dining area with wooden tables and chairs, a kitchen with granite countertops, and a view of the outdoors through large windows.

4. Comfort Inn & Suites West - Medical Center

Rochester

yuan

CA $117

CA $134 total

includes taxes & fees

Oct 10 - Oct 11

A spacious outdoor dining area with modern furniture and large windows offering views of the city.

A modern hotel room with a large bed, a sofa, a small table, a desk, and a wardrobe.

A reception desk with a modern design, featuring a wooden panel and a wall adorned with framed botanical artwork.

A modern interior with a wooden ceiling, a large black shelving unit, and a refrigerator stocked with beverages.

5. Hotel Indigo Rochester – Mayo Clinic Area by IHG

Downtown Rochester

thomas

CA $152

CA $176 total

includes taxes & fees

Oct 24 - Oct 25

An outdoor patio area with yellow umbrellas, wicker furniture, and a sign for Centerstone Plaza Hotel.

A modern living room with a dark wall, a decorative light fixture, and a patterned wall art piece.

A garden with a water feature, rocks, and yellow umbrellas.

A restaurant interior with wooden tables, chairs, and a stone wall.

6. Centerstone Plaza Hotel Soldiers Field - Mayo Clinic Area

Historic Southwest

Van

CA $145

CA $167 total

includes taxes & fees

Oct 24 - Oct 25

An outdoor seating area with a fire feature, blue cushioned chairs, and a modern building with large windows in the background.

A modern bar area with seating and a counter.

A modern indoor pool area with lounge chairs and a pool.

A modern Hyatt House hotel with a prominent 'Hyatt House' sign, multiple floors, and a parking garage.

7. Hyatt House Rochester/Mayo Clinic Area

Downtown Rochester

Kathy

CA $168

CA $194 total

includes taxes & fees

Oct 17 - Oct 18

An outdoor seating area with wooden pillars, colorful striped cushions, and potted plants.

An indoor swimming pool with wooden ceiling beams, yellow chairs, and tables along the sides.

A modern lounge area with a sofa, chairs, and tables.

A modern restaurant with a counter, seating area, and a TV screen.

8. Home2 Suites by Hilton Rochester Mayo Clinic Area

Rochester

Vickie

CA $174

CA $200 total

includes taxes & fees

Oct 24 - Oct 25

A spacious hotel lobby with multiple seating areas, including sofas and round tables, and a large dining area with yellow chairs.

A hotel room with a blue sofa, a wooden bench, a small table with a lamp, a painting of a flower, and a kitchenette in the background.

A spacious lobby with a large seating area, a fireplace, and large windows providing natural light.

A grocery store with refrigerated and frozen sections, shelves stocked with snacks, and a variety of beverages.

9. Hilton Garden Inn Rochester Downtown, MN

Downtown Rochester

Richard

CA $162

CA $187 total

includes taxes & fees

Oct 23 - Oct 24

An indoor swimming pool with slides, seating areas, and a covered section with umbrellas.

A hotel room with two beds, a desk with a chair, a TV, and a window with curtains.

A modern kitchen with black cabinets, white countertops, and a tiled backsplash. There are pendant lights, a refrigerator, and a coffee machine.

A hotel room with a kitchen area, a bed, a TV, and a seating area.

10. Best Western Rochester Hotel Mayo Clinic Area/St. Mary's

Rochester

Vicky

CA $135

CA $155 total

includes taxes & fees

Oct 9 - Oct 10

A modern hotel lobby with a reception desk, seating area, and a kitchenette.

A hotel with a covered entrance, multiple floors, and a parking lot.

A modern hotel lobby with a reception desk, seating area, and a large window providing natural light.

A small, well-organized pantry with shelves stocked with snacks and beverages.

11. Spark by Hilton Rochester South

Rochester

Stanton

CA $124

CA $143 total

includes taxes & fees

Nov 1 - Nov 2

An indoor swimming pool with a curved design, surrounded by palm trees and a white pool ladder.

A modern interior with a fireplace, a green armchair, and a patterned rug.

A modern hotel with a prominent neon sign, multiple floors, and a well-maintained lawn area.

A modern hotel lobby with a reception desk, a digital information kiosk, and a patterned floor.

12. Treasure Island Resort & Casino

Welch

Bill

CA $104

CA $131 total

includes taxes & fees

Oct 13 - Oct 14

A self-service breakfast station with a waffle maker, coffee machines, and a variety of condiments.

A hotel lobby with leather sofas, a stone fireplace, and a patterned carpet.

A compact laundry area with a washing machine, dryer, and a water fountain.

A reception area with a wooden reception desk, a red doormat, and framed awards on the wall.

13. Econo Lodge Mayo Clinic Area

Rochester

Ashley

CA $100

CA $116 total

includes taxes & fees

Nov 1 - Nov 2

A modern outdoor seating area with a built-in fireplace, two wooden chairs, a table, and a sofa.

A modern kitchen with a central island, bar stools, and pendant lighting. A living area with a sofa, ottoman, and a view of the outdoors is visible.

A hotel room with a kitchenette, a bed, a sofa, a small table, and a window with curtains.

A gym with various exercise equipment, including treadmills, stationary bikes, and weight machines.

14. Staybridge Suites Rochester - Mayo Clinic Area by IHG

Kutzky Park

Sheri

CA $152

CA $178 total

includes taxes & fees

Nov 1 - Nov 2

A restaurant with wooden tables and bar stools, a bar area with a counter, and multiple televisions mounted on the walls.

A hotel room with two beds, a desk, a chair, and a mirror.

A modern kitchen with wooden cabinets, a microwave, an oven, and a dishwasher.

An indoor swimming pool with a slide, seating area, and a large frog statue.

15. AmericInn by Wyndham Rochester Near Mayo Clinic

Rochester

Jeanne

CA $104

CA $120 total

includes taxes & fees

Oct 25 - Oct 26

A modern kitchen with a dark countertop, black cabinets, a microwave, and a refrigerator. There are two pendant lights above the counter.

A hotel gym with treadmills, elliptical machines, and free weights.

A hotel room with a large round table, two sofas, a TV, and a bed.

A hotel lobby with a reception desk, seating area, and a large window.

16. Candlewood Suites Rochester Mayo Clinic Area by IHG

Rochester

Sean

CA $165

CA $190 total

includes taxes & fees

Oct 9 - Oct 10

An outdoor patio area with a concrete floor, wooden fence, and string lights.

A modern living room with a stone fireplace, a blue armchair, a round coffee table, and a large window offering a view of the outdoors.

A Fairfield Inn & Suites hotel with a modern design, featuring a prominent entrance and a parking area.

17. Fairfield Inn & Suites Rochester Mayo Clinic Area/St. Marys

Kutzky Park

Jon

CA $159

CA $183 total

includes taxes & fees

Oct 17 - Oct 18

A Holiday Inn Express building with a covered entrance, outdoor seating area, and a well-lit facade.

A coffee station with two espresso machines and a variety of coffee pods and cups.

A hotel dining area with multiple tables and chairs, a coffee station, and a seating area with sofas.

18. Holiday Inn Express & Suites Rochester – Mayo Clinic Area by IHG

Kutzky Park

Janet

CA $162

CA $187 total

includes taxes & fees

Oct 10 - Oct 11

A reception area with a wooden reception desk, a "Welcome to the Bread & Butter State" sign, and a "Please Center" sign.

A pool area with a table and chairs, a lifeguard chair, and a pool lift.

A modern lounge area with seating arrangements, a reception desk, and a patterned wall.

A hotel room with a bed, a desk, a chair, a TV, and a bathroom visible through an open door.

19. Hampton Inn Rochester-South

Rochester

dennis

CA $151

CA $174 total

includes taxes & fees

Oct 11 - Oct 12

A hotel entrance with a stone facade, a glass door, and a metal roof structure.

A hotel lobby with striped armchairs, a sofa, a fireplace, and a clock on the wall.

An outdoor patio area with brick walls, a large arched window, and outdoor seating.

A spa area with a hot tub, exercise equipment, and a seating area with chairs and a table.

20. Aspen Suites

Rochester

Dana

CA $212

CA $257 total

includes taxes & fees

Oct 23 - Oct 24

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Vacation Rentals in Southeast Minnesota

Aparthotel

A spacious living area with a modern staircase, leather sofas, and contemporary lighting.

A modern interior with a large dining table, sofas, and a kitchen area.

An outdoor seating area with blue sofas and wicker chairs, a wooden table, and green ottomans on a tiled patio.

A rooftop pool area with lounge chairs and umbrellas, surrounded by a modern building with a brick facade.

The Berkman

Folwell

"Excellent service and wonderful room!"

Apartment

A bedroom with a large bed, a TV on a dresser, and a view of the city through large windows.

An indoor swimming pool with a clock on the wall, lounge chairs, and a lifeguard warning sign.

A multi-story building with the sign 'Broadway Plaza' indicating a commercial or hotel property.

A modern kitchen with wooden cabinets, a granite countertop, and a stainless steel stove.

Broadway Plaza, Trademark Collection by Wyndham

Downtown Rochester

"The staff were friendly and very helpful when we had questions. The kitchen was well equipped and clean. The parking was handy and lived the Skywalks."

Apartment

A two-story building with a green exterior, a covered porch, and a driveway leading to a garage.

A modern kitchen with stainless steel appliances, wooden cabinets, and a dishwasher.

A room with a large window, a flat-screen TV mounted on the wall, a fluffy chair, a small round table, and a chair with a basket.

A bed with a white blanket and patterned pillows, a framed picture on the wall, and a window with a view.

Northfield Apt Close to Downtown: Winter Walk

Northfield

"It was amazing!"

Cottage

A red building with a single door and window, a small table, and a bench outside.

A modern interior with a stone fireplace, wooden walls, a leather sofa, and a dining area.

A kitchen with wooden cabinets, a stove, a sink, and a window with a view of trees.

A bedroom with a wooden bed, a desk, a lamp, and large windows with a view of trees.

Pet-friendly Cabin Retreat: Walk to Lake Pepin!

Pepin

"What a fun place! Plenty of room. We played foosball had a fire outside. We enjoyed the fireplace too. We hadn’t anticipated no TV though. You might want to add that to your description. The water is definitely smelly, so we truly appreciated the 40 bottles of water you provided. Definitely a great place for a girl’s weekend or family reunion!"

Apartment

A bedroom with a bed, a chair, a table, a fireplace, and a ceiling fan.

A kitchen with wooden cabinets, stainless steel appliances, and a dining table with chairs.

A single-story house with a front porch, a small staircase leading to a deck, and a stone retaining wall.

A living room with a fireplace, a television mounted above it, and a large window offering a view of the outdoors.

Pet-friendly Wabasha Studio: Boat, Ski & Explore!

Wabasha

"Great property! Very convenient location as well."

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Stay near popular Southeast Minnesota attractions

A cave with a reflective pool and illuminated walls.

Forestville Mystery Cave State Park

9.0/10 (22 reviews)

Commune with nature and explore the great outdoors at Forestville Mystery Cave State Park during your travels in Preston. Wander the parks or discover the area's countryside.

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A courtyard with a stone fountain, yellow buildings with arches, and a clear sky.

Villa Bellezza

8.4/10 (31 reviews)

You can enjoy a tasting or tour at Villa Bellezza during your travels to Pepin. While you're in the area, stroll along the lakeside.

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Mayo Civic Center

9.2/10 (818 reviews)

Catch an event at Mayo Civic Center during your trip to Rochester. Attend a sporting event or simply visit the area's shops.

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Apache Mall

8.6/10 (1,101 reviews)

During your visit to Rochester, you can do some window-shopping at Apache Mall. Attend a sporting event or simply enjoy the top-notch restaurants while you're in the area.

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Rochester Recreation Center

8.0/10 (205 reviews)

Catch an event at Rochester Recreation Center during your trip to Rochester. Attend a sporting event or simply enjoy the top-notch restaurants while you're in the area.

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National Volleyball Center

7.8/10 (151 reviews)

Catch an event at National Volleyball Center during your trip to Rochester. Attend a sporting event or simply enjoy the top-notch restaurants while you're in the area.

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Welch Village Ski Area

8.6/10 (16 reviews)

Hit the slopes in Welch with a visit to Welch Village Ski Area. Stroll along the area's riverfront or simply enjoy its coffeehouses.

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Shattuck-St. Mary's School

9.6/10 (69 reviews)

Enjoy the collegiate vibe when you visit Shattuck-St. Mary's School, during your trip to Faribault. Visit the shops in this family-friendly area, or simply enjoy its coffeehouses.

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Learn more about Southeast Minnesota

Explore the family-friendly area of Southeast Minnesota—restaurants, sports teams, and sights from Mayowood Mansion to Apache Mall.

See all hotels in Southeast Minnesota

A lake surrounded by dense forest and a distant hill with a fort.

Top Southeast Minnesota Hotel Reviews

Boarders Inn & Suites by Cobblestone Hotels - Faribault

8/10 Good

"Shower head was broken when I arrived. New one was replaced in 2 days. Very loud refrigerator (woke up every time it cycled on/off). Overall, though, a very pleasant stay. The desk attendant was very amiable. Will return."

Med City Inn & Suites - Mayo Clinic Area

8/10 Good

"everything was nice and quiet clean and comfortable"

Kahler Grand Hotel

10/10 Excellent

"This is a grand hotel - stately, convenient and a delightful place to stay. Loved the walkable "subway" connecting the hotel to restaurants and Mayo Clinic. Enjoyed the Architecture and history of the Plummer Bldg."

Kahler Inn and Suites - Mayo Clinic Area

8/10 Good

"Overall it was a good stay. Pros: this hotel has the underground tunnel connected to the hospital so it was easy walking over, expecially since there is massive construction going on right there. Hotel was clean, staff was wonderful, breakfast was a good variety and good. Rooms were quiet, never heard any of the construction! A detail I may have missed or it wasn’t added in the description was if you parked in there ramp it was 17 dollars a night. Cons: defiantly needs some updating, but biggest con was the room we had was definitely not handicap accessible at all for the bathroom. Being “connect” to the hospital and the amount of the elderly I would think it would have something there. Toilet was so low almost ment for a child, and extremely tiny room, no grab bars, and step in shower/tub. I would stay here again, most definitely but not if I had elderly with me again"

Brentwood Inn & Suites

10/10 Excellent

"Staff was very helpful and kind. Desk chair worn and could use a replacement-normally would not care but was working remote while there. Wi-Fi great"

Country Inn & Suites by Radisson, Albert Lea - Austin

10/10 Excellent

"Breakfast was awesome"

SpringHill Suites by Marriott Rochester-Mayo Clinic/St Marys

10/10 Excellent

"Had great help from staff."

More cheap stays in Southeast Minnesota

Birch Hill Suite Rochester – Med City

3595 Commercial Drive SW Rochester MN

CA $83

CA $95 total

Oct 5 - Oct 6

includes taxes & fees

7.6/10 Good! (87 reviews)

Med City Inn & Suites - Mayo Clinic Area

435 16th Ave Nw Rochester MN

CA $102

CA $117 total

Oct 5 - Oct 6

includes taxes & fees

7.8/10 Good! (1,029 reviews)

Country Inn & Suites by Radisson, Albert Lea - Austin

2214 E Main St Albert Lea MN

CA $109

CA $120 total

Nov 1 - Nov 2

includes taxes & fees

8.6/10 Excellent! (1,001 reviews)

Boarders Inn & Suites by Cobblestone Hotels - Faribault

1801 Lavender Dr Faribault MN

CA $110

CA $121 total

Oct 14 - Oct 15

includes taxes & fees

7.8/10 Good! (1,001 reviews)

Brentwood Inn & Suites

123 Fourth Ave. NW Rochester MN

CA $134

CA $154 total

Oct 29 - Oct 30

includes taxes & fees

8.8/10 Excellent! (1,005 reviews)

Cobblestone Hotel & Suites - Austin

1000 16th Avenue NW Austin MN

CA $153

CA $169 total

Oct 11 - Oct 12

includes taxes & fees

Hotels in Southeast Minnesota with star rating

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Find hotels in Southeast Minnesota, MN from CA $80

Change your mind

Treat yourself

Be picky

Go beyond your typical stay in Southeast Minnesota

Check prices for these dates

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Our top choices for Southeast Minnesota hotels

1. Hampton Inn & Suites Rochester-North

2. EVEN Hotel Rochester - Mayo Clinic Area by IHG

3. Comfort Inn & Suites Rochester South Mayo Clinic

4. Comfort Inn & Suites West - Medical Center

5. Hotel Indigo Rochester – Mayo Clinic Area by IHG

6. Centerstone Plaza Hotel Soldiers Field - Mayo Clinic Area

7. Hyatt House Rochester/Mayo Clinic Area

8. Home2 Suites by Hilton Rochester Mayo Clinic Area

9. Hilton Garden Inn Rochester Downtown, MN

10. Best Western Rochester Hotel Mayo Clinic Area/St. Mary's

11. Spark by Hilton Rochester South

12. Treasure Island Resort & Casino

13. Econo Lodge Mayo Clinic Area

14. Staybridge Suites Rochester - Mayo Clinic Area by IHG

15. AmericInn by Wyndham Rochester Near Mayo Clinic

16. Candlewood Suites Rochester Mayo Clinic Area by IHG

17. Fairfield Inn & Suites Rochester Mayo Clinic Area/St. Marys

18. Holiday Inn Express & Suites Rochester – Mayo Clinic Area by IHG

19. Hampton Inn Rochester-South

20. Aspen Suites

Vacation Rentals in Southeast Minnesota

The Berkman

Broadway Plaza, Trademark Collection by Wyndham

Northfield Apt Close to Downtown: Winter Walk

Pet-friendly Cabin Retreat: Walk to Lake Pepin!

Pet-friendly Wabasha Studio: Boat, Ski & Explore!

Stay near popular Southeast Minnesota attractions

Forestville Mystery Cave State Park

Villa Bellezza

Mayo Civic Center

Apache Mall

Rochester Recreation Center

National Volleyball Center

Welch Village Ski Area

Shattuck-St. Mary's School

Learn more about Southeast Minnesota

Top Southeast Minnesota Hotel Reviews

Boarders Inn & Suites by Cobblestone Hotels - Faribault

Med City Inn & Suites - Mayo Clinic Area

Kahler Grand Hotel

Kahler Inn and Suites - Mayo Clinic Area

Brentwood Inn & Suites

Country Inn & Suites by Radisson, Albert Lea - Austin

SpringHill Suites by Marriott Rochester-Mayo Clinic/St Marys

More cheap stays in Southeast Minnesota

Birch Hill Suite Rochester – Med City

Med City Inn & Suites - Mayo Clinic Area

Country Inn & Suites by Radisson, Albert Lea - Austin

Boarders Inn & Suites by Cobblestone Hotels - Faribault

Brentwood Inn & Suites

Cobblestone Hotel & Suites - Austin

Hotels in Southeast Minnesota with star rating

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