Top Boutique Hotels in Nagasaki (2026)

Located in Goto, 5.8 miles from Fukue Catholic Church, GOTO RETREAT by Onko Chishin has accommodations with a shared lounge, free private parking, a terrace and a restaurant. This 5-star hotel offers a bar. Guests can enjoy sea views. The hotel will provide guests with air-conditioned rooms offering a desk, an electric tea pot, a fridge, a minibar, a safety deposit box, a flat-screen TV and a private bathroom with a bidet. At GOTO RETREAT by Onko Chishin the rooms are equipped with bed linen and towels. Guests at the accommodation can enjoy an Asian breakfast. The area is popular for cycling, and bike rental is available at GOTO RETREAT by Onko Chishin. Speaking both English and Japanese, staff at the reception can help you plan your stay. Jotobana is 6.1 miles from the hotel, while Mizunoura Church is 13 miles from the property. The nearest airport is Fukue Airport, 1.9 miles from GOTO RETREAT by Onko Chishin.

- "This hotel was beautiful and the views of the ocean and mountain landscape were spectacular. The staff was so kind and accommodating. The room and facilities were clean and comfortable. The breakfast was quick, and delicious and the drinks at the bar were well-made. I can not say enough nice things about this hotel. One of my favorite stays and Amila-san and Ryo-san were exceptional hosts." - "Beautiful place and surroundings and very helpful staff. We needed to go back early to avoid a taifun. Reception called us early in the morning to update on situation and bring us to the only ferry of the day"

Unzen Kyushu Hotel is a minute's walk from Unzen Jigoku and an 18-minute walk from Unzen National Park. The ryokan features luggage storage space. At the ryokan, all rooms have a terrace and a private hot spring bath. Rooms have a private bathroom with a shower and free amenities. Guest rooms will provide guests with a fridge. The property is around a 5-minute walk from Unzen Hot Spring. Isahaya Station is an 80-minute bus ride from Unzen Kyushu Hotel. Nagasaki Airport is a 90-minute drive from the property.

- "Great view from room. Bed is comfortable and felt as if I’m at home." - "Excellent view from room even better than photo. The room setting is relaxing. Dinner was amazing. Staff is nice." - "The room included drinks at the rooftop and at the bar lounge. Also, the room was big and the bath was amazing. The hotel was right in front of the Unzen hot springs so we could walk around and look at where the martyrs were killed." - "The staff assisted me to have the same room despite my bookings were made for 2 consecutive separate dates (pending final itinerary)"

Located in the historic Minami-yamate area, Setre Glover's House Nagasaki provides spacious guestrooms fitted with charming European furnishings. It offers creative cuisine with Japanese, Chinese and Western influences, prepared from local Nagasaki ingredients. Guests can enjoy complementary drinks at the lounge, which features many books about Nagasaki. Elegantly decorated with furniture from Spain, each room comes with a flat-screen TV, a fridge, a hairdryer and an electric kettle. The private bathroom features a large bath tub and bath amenities. Night wear is provided. Luggage can be stored at the 24-hour front desk for free. On-site parking is free and requires a reservation in advance. The hotel is a 5-minute walk from Oura-tenshudo-shita tram stop, which is a 12-minute tram ride from JR Nagasaki Station. Glover Garden is a 3-minute walk, and Oura Church is a 3-minute walk away. The on-site restaurant serves creative cuisine with Japanese, Chinese and Western influences. Local Nagasaki rice can be enjoyed for breakfast.

- "Breakfast & dinner was amazing!" - "Very comfortable and hospitable hotel. Snacks and drinks available any time." - "Charming and centrally located with free but limited parking. The breakfast was delicious!" - "Friendly staff. Nice neighborhood- easy access to trolley. Unexpectedly very good dinner and breakfast-best part of my stay! Comfortable room with nice views." - "The location is excellent. The staff are great. The beds are very comfortable. The lounge with free drinks (non-alcoholic & alcoholic) and snacks is a great place to sit and relax. The set breakfast is very good and the set dinner was amazing. You have to book for dinner because the chef designs a different 4 course menu every day. It was almost perfect!"