Nagasaki Prefecture Cheap Vacations

Book a Cheap Hotel + Flight or Car together to unlock savings

  • Plan, book, travel with confidence

  • payments icon

    Better together

    Save up to ¥45,448 when you book a flight and hotel together*
    lob hotels icon

    Find the right fit

    With over 300,000 hotels worldwide, it's easy to create a perfect package
    lob packages icon

    Rest easy

    Plan, book, and manage your trip all in one place

Top Cheap Nagasaki Prefecture Hotels

Cuore Nagasaki EkiMae

Cuore Nagasaki EkiMae

3 out of 5
7-3 Daikokumachi, Nagasaki, Nagasaki, Kyushu Island
  • 56 min drive from Huis Ten Bosch
The price is ¥6,691 per night from Jul 22 to Jul 23
¥6,691
¥7,360 total
Jul 22 - Jul 23
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! (1,001 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

Cuore Nagasaki EkiMae
APA Hotel Nagasaki Dejima

APA Hotel Nagasaki Dejima

3 out of 5
8-17 Kabashima-machi, Nagasaki, Nagasaki-ken
  • 57 min drive from Huis Ten Bosch
The price is ¥7,025 per night from Jul 27 to Jul 28
¥7,025
¥7,805 total
Jul 27 - Jul 28
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

APA Hotel Nagasaki Dejima
Dormy Inn Nagasaki Shinchi Chinatown Hot Spring

Dormy Inn Nagasaki Shinchi Chinatown Hot Spring

3.5 out of 5
7-24 Douza-machi, Nagasaki, Nagasaki-ken
  • 57 min drive from Huis Ten Bosch
The price is ¥7,201 per night from Jul 27 to Jul 28
¥7,201
¥8,019 total
Jul 27 - Jul 28
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! (1,005 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

Dormy Inn Nagasaki Shinchi Chinatown Hot Spring
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.