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Our top choices for Southeast Minnesota hotels

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

1. Hampton Inn & Suites Rochester-North

Rochester

Mark

CA $165 total

includes taxes & fees

Nov 6 - Nov 7

A Comfort Inn & Suites hotel with a modern design, featuring a prominent signage and a parking lot.

2. Comfort Inn & Suites Rochester South Mayo Clinic

Rochester

Terri

CA $121 total

includes taxes & fees

Nov 7 - Nov 8

A modern interior with a bar area, seating, and a large window.

3. Hotel Indigo Rochester – Mayo Clinic Area by IHG

Downtown Rochester

Naomi

CA $160 total

includes taxes & fees

Nov 26 - Nov 27

A hotel reception desk with a wooden counter, a computer, and a vase with flowers.

4. Baymont by Wyndham Kasson Rochester Area

Kasson

Dana

CA $98 total

includes taxes & fees

Nov 2 - Nov 3

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

5. Spark by Hilton Rochester South

Rochester

Stanton

CA $108 total

includes taxes & fees

Nov 1 - Nov 2

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

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

Kutzky Park

Janet

CA $163 total

includes taxes & fees

Oct 31 - Nov 1

A spacious lobby with a reception desk, sofas, and a coffee table.

7. Sleep Inn & Suites West-Near Medical Center

Rochester

Jacqueline

CA $123 total

includes taxes & fees

Nov 22 - Nov 23

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

8. EVEN Hotel Rochester - Mayo Clinic Area by IHG

Kutzky Park

James

CA $196 total

includes taxes & fees

Nov 6 - Nov 7

A hotel room with a large bed, a desk, a chair, a television, and a window with curtains.

9. Econo Lodge Mayo Clinic Area

Rochester

Ashley

CA $108 total

includes taxes & fees

Nov 7 - Nov 8

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

10. Hyatt House Rochester/Mayo Clinic Area

Downtown Rochester

Arlan

CA $205 total

includes taxes & fees

Nov 13 - Nov 14

11. AmericInn by Wyndham Rochester Near Mayo Clinic

Rochester

blake

CA $119 total

includes taxes & fees

Nov 22 - Nov 23

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

12. Home2 Suites by Hilton Rochester Mayo Clinic Area

Rochester

howard

CA $177 total

includes taxes & fees

Nov 7 - Nov 8

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

13. Centerstone Plaza Hotel Soldiers Field - Mayo Clinic Area

Historic Southwest

Deanna

CA $184 total

includes taxes & fees

Oct 31 - Nov 1

A modern living room with a fireplace, comfortable seating, and large windows.

14. Staybridge Suites Rochester - Mayo Clinic Area by IHG

Kutzky Park

Amanda

CA $172 total

includes taxes & fees

Nov 25 - Nov 26

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

15. Treasure Island Resort & Casino

Welch

Kristine

CA $146 total

includes taxes & fees

Nov 1 - Nov 2

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

16. Holiday Inn Express Rochester South - Mayo Area by IHG

Rochester

Rick

CA $139 total

includes taxes & fees

Nov 7 - Nov 8

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

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

Kutzky Park

Brien

CA $187 total

includes taxes & fees

Nov 6 - Nov 7

A hotel room with a flat-screen TV, a sofa with a red pillow, a small table, and a lamp.

18. TownePlace Suites by Marriott Rochester

Rochester

Christina

CA $158 total

includes taxes & fees

Nov 6 - Nov 7

A hotel room with a large bed, a desk, a chair, a TV, and a window with curtains.

19. Microtel Inn & Suites by Wyndham Rochester North Mayo Clinic

Rochester

John

CA $112 total

includes taxes & fees

Nov 1 - Nov 2

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Vacation Rentals in Southeast Minnesota

Aparthotel

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

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.

Broadway Plaza, Trademark Collection by Wyndham

Downtown Rochester

"Clean room and great location"

Apartment

A wooden interior with a kitchen, bar area, and a staircase.

Lake Pepin Escape: Loft Cottage & Fireplace

Pepin

"Great location and very well furnished with new appliances."

Apartment

A modern kitchen with a central island, bar stools, and a large window.

1 Block to Lake City Marina: Condo w/ Rooftop Deck

Lake City

"Wonderful property, spacious, well-appointed and comfortable. Would definitely rent again."

Cottage

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

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.

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

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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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

Kahler Inn and Suites - Mayo Clinic Area

10/10 Excellent

"Staff was extremely helpful and friendly. Breakfast was definitely above average and our room was clean and in good condition. All connected to pedestrian subway to all Mayo buildings, parking ramps and shopping. I’ll be going back to Mayo for future appointments and will definitely book the Kahler Inn and Suites again."

AmericInn by Wyndham Rochester Near Mayo Clinic

8/10 Good

"The room was a really good size, including the bathroom. Everything was clean in the room and the building in general. The gym is a bit bare bones for weight selection but doable. The guy who checked us in was friendly and helpful, but everyone else on staff seemed like they’d rather be anywhere else. There is a restaurant attached, and hotel guests receive a discount, which was great. Our server at the restaurant was so helpful and very friendly, there just wasn’t a lot of menu options if you don’t want typical pub food. Overall a good stay, but I wouldn’t give it 5 stars."

EVEN Hotel Rochester - Mayo Clinic Area by IHG

8/10 Good

"Pros: very clean! Convenient restaurant/bar in lobby & within walking distance. Mayo shuttle was very convenient & on time. Con’s: I was told by booking company, Even Hotel provides tunnel access to Mayo Clinic. It does not. Website showed 100% hardwood floors & hotel desk confirmed it. Not true. Half of room was carpet:( Although very nice, I was disappointed the shower had no bars & no shower seat. Because most guest in a hotel near Mayo are probably sick/elderly, it seems bathroom safety & comfort would b a priority."

Cobblestone Hotel & Suites - Austin

8/10 Good

"We chose this hotel because it had a bar. I wanted to take a glass of wine back to my room. What a disappointment! There was one bottle of very bad of red and a warm Chardonnay. Okay I’ll have a gin and tonic. Nope. No tonic. The receptionist doubled a bartender. She did her best but didn’t have much to work with"