- 5th Avenue Inn and Suites
- AmericInn by Wyndham Rochester
- AmericInn by Wyndham Rochester Near Mayo Clinic
- Aspen Select
- Aspen Suites - Rochester
- Baymont by Wyndham Rochester Mayo Clinic Area
- Best Price Inn
- Best Western Rochester Hotel Mayo Clinic Area St Mary's
- Brentwood Inn & Suites
- Candlewood Suites Rochester Mayo Clinic Area
- Centerstone Plaza Hotel Soldiers Field - Mayo Clinic Area
- Comfort Inn & Suites West - Medical Center
- Country Inn & Suites by Radisson, Rochester, MN
- Country Inn and Suites Rochester South Mayo Clinic
- Courtyard by Marriott Rochester Mayo Clinic Area/Saint Marys
- Days Inn & Suites Rochester South
- Econo Lodge Mayo Clinic Area
- Even Hotel Rochester - Mayo Clinic Area, An IHG Hotel
- Extended Stay America Suites - Rochester - North
- Fairfield Inn & Suites by Marriott Rochester Mayo Clinic Area/Saint Marys
- Guesthouse Inn & Suites Rochester
- Hampton Inn & Suites Rochester-North
- Hampton Inn Rochester
- Hilton Garden Inn Rochester Downtown
- Hilton Rochester Mayo Clinic Area
- Holiday Inn Express & Suites Rochester West-Medical Center
- Home2 Suites by Hilton Rochester Mayo Clinic Area
- Homewood Suites By Hilton Rochester Mayo Clinic Area / Saint Marys
- Hotel Indigo Rochester Downtown
- Hyatt House Rochester Mayo Clinic Area
- Kahler Grand Hotel
- Kahler Inn and Suites - Mayo Clinic Area
- La Quinta Inn & Suites by Wyndham Rochester Mayo Clinic S
- MainStay Suites Rochester South Mayo Clinic
- Microtel Inn & Suites by Wyndham Rochester Mayo Clinic North
- Microtel Inn & Suites by Wyndham Rochester South Mayo Clinic
- Motel 6 Rochester, MN
- Quality Inn Near Medical Center
- Quality Inn and Suites Mayo Clinic Area
- Red Carpet Inn Rochester
- Residence Inn by Marriott Rochester Mayo Clinic Area
- Rochester Inn
- Rochester Marriott Mayo Clinic Area
- Sleep Inn and Suites West-Near Medical Center
- Springhill Suites Rochester Mayo Clinic Area / Saint Marys
- Staybridge Suites Rochester - Commerce Dr Nw
- Super 8 by Wyndham Rochester Mayo Clinic Area
- The Towers At Kahler Grand Hotel
- TownePlace Suites by Marriott Rochester
- Towneplace Suites By Marriott Rochester Mayo Clinic Area