
Nagasaki Prefecture Cheap Vacations
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Top Cheap Nagasaki Prefecture Hotels

Cuore Nagasaki EkiMae
7-3 Daikokumachi, Nagasaki, Nagasaki, Kyushu Island
The price is ¥6,691 per night from Jul 30 to Jul 31
¥6,691
¥7,360 total
Jul 30 - Jul 31
Stay at this 3-star business-friendly hotel in Nagasaki. Enjoy free WiFi, breakfast (surcharge), and in-room massages. Our guests praise the helpful staff and ...
8.6/10 Excellent! (1,003 reviews)
"Clean and quiet hotel located opposite the train station. The street is quite noisy, but inside you wouldn't tell as the acoustic insulation is quite good. Room is small but has everything needed for a short stay."
Reviewed on Jun 12, 2025

APA Hotel Nagasaki Dejima
8-17 Kabashima-machi, Nagasaki, Nagasaki-ken
The price is ¥7,467 per night from Jul 7 to Jul 8
¥7,467
¥8,214 total
Jul 7 - Jul 8
Stay at this 3-star hotel in Nagasaki. Enjoy free WiFi, breakfast (surcharge), and a 24-hour front desk. Popular attractions Nagasaki Dejima and Dejima Museum ...
7.6/10 Good! (217 reviews)
"I loved that there was signage in multiple languages."
Reviewed on Apr 3, 2025

Dormy Inn Nagasaki Shinchi Chinatown Hot Spring
7-24 Douza-machi, Nagasaki, Nagasaki-ken
The price is ¥7,037 per night from Jul 14 to Jul 15
¥7,037
¥7,855 total
Jul 14 - Jul 15
Stay at this 3.5-star hotel in Nagasaki. Enjoy free WiFi, breakfast (surcharge), and a sauna. Popular attractions Hamanomachi Arcade and Dejima Museum are located ...
8.6/10 Excellent! (1,002 reviews)
"Breakfast was really good, the carpark is next to the hotel and a family mart is also on the ground floor. Nice public bath and Onsen"
Reviewed on May 30, 2025
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.
* Savings based on package bookings compared to the price of the same components booked separately. Savings not available on all packages.