Looking for a unique hotel experience beyond typical tourist accommodations in Tokyo?
Living in Tokyo for over 20 years, I’ve picked these 12 amazing boutique hotels in Tokyo for travelers from overseas. I chose them based on my local experience and many hotel visits.
Our boutique hotel criteria:
🏠Not a big chain hotel
🛌Small to Medium size (Small Luxury)
⭐High quality with great guest reviews
Each 12 hotels listed here has its own special charm. I hope this local guide helps you find a perfect place to stay on your Tokyo trip!
Best Boutique Hotel in Tokyo
Why Best?: A top Small Luxury Hotel in Tokyo, Staff addresses every guest by name.
⚡Save Big on Tokyo Travel, def worth it: Klook Pass Tokyo
Best 12 Boutique Hotels in Tokyo
1. The Kitano Hotel Tokyo
Small Luxury at its Best: One of Tokyo’s Most Respected Boutique Hotels
📍Area: Near Imperial Palace
⭐Review Score: 9.0 (Wonderful)
🛌# of Rooms: 70
Show full description
This highly respected boutique hotel is one of Tokyo’s finest small luxury spots – and wow, it shows! With perfectly curated rooms and an amazing rooftop bar, you’ll see why locals consider this the gold standard for boutique stays.
The super attentive staff treats you like you’re family – that’s what top boutique hotels do best. From the free drinks in the minibar to the peaceful vibe, everything here sets the bar for Tokyo’s luxury boutique scene.
How to Book here?
You can book here with Agoda or Booking.com.
⚡Save Big on Tokyo Travel, def worth it: Klook Pass Tokyo
2. TRUNK Hotel Yoyogi Park
Small Luxury Michelin Haven: Intimate Parkside Boutique Oasis
📍Area: Yoyogi Park, near Shibuya
⭐Review Score: 9.5 (Exceptional)
🛌# of Rooms: 25
Show full description
This intimate Michelin hotel brings a fresh approach to luxury stays. The stunning rooftop pool and park views create a perfect urban escape.
The thoughtfully designed rooms and attentive service define boutique luxury. From welcome drinks to turndown treats, every detail impresses.
How to Book here?
You can book here with Agoda or Booking.com.
Already in Your Itinerary? teamLab Borderless Tokyo Great Deal
3. PETALS Tokyo-Floating Hotel
Small Luxury on Water: Art-Inspired Floating Boutique Haven
📍Area: Tennozu Isle, near Shinagawa
⭐Review Score: 9.5 (Exceptional)
🛌# of Rooms: 4
Show full description
This floating boutique hotel redefines waterfront luxury in Tokyo. The artistic harbor rooms provide an enchanting escape.
The intimate four-room sanctuary celebrates modern Japanese design. A tranquil waterscape transforms city stays into serene retreats.
How to Book here?
You can book here with Agoda or Booking.com.
Unique Hotels in Tokyo? Read Next: 15 Best Themed Hotels in Tokyo
4. Tokyo Station Hotel
Small Luxury at Tokyo Station: Historic Heritage Boutique Icon
📍Area: Tokyo Station itself
⭐Review Score: 9.4 (Wonderful)
🛌# of Rooms: 150
Show full description
This landmark boutique hotel seamlessly blends historic charm with luxury service. The grand station building offers unmatched transport convenience.
The elegantly restored rooms reflect timeless Japanese hospitality. From imperial views to classic bars, every detail honors tradition.
How to Book here?
You can book here with Agoda or Booking.com.
When in Tokyo, Do as the Japanese Do! Sushi Making Class Tokyo🍣
5. Hotel K5
Historic Bank Reborn: Design-Forward Boutique in Nihonbashi
📍Area: Nihonbashi, near Tokyo Station
⭐Review Score: 9.3 (Wonderful)
🛌# of Rooms: 40
Show full description
This intimate design hotel transforms a historic bank into Tokyo’s coolest stay. The spacious artistic rooms showcase Japanese modern luxury.
The stylish common spaces radiate sophisticated charm. A craft cocktail bar and vinyl library create a distinctly local vibe.
How to Book here?
You can book here with Agoda or Booking.com.
If It’s Family Trip, Read Next: 12 Best Family Friendly Hotels in Tokyo
6. Onsen Ryokan Yuen Bettei Tokyo Daita
Modern Tokyo Ryokan: Urban Onsen Haven near Shibuya
📍Area: 10 min train from Shibuya
⭐Review Score: 9.2 (Wonderful)
🛌# of Rooms: 35
Show full description
This contemporary ryokan brings hot spring serenity to central Tokyo. A natural onsen bath sourced from Hakone creates an authentic retreat.
The peaceful zen rooms honor traditional Japanese hospitality. Steps from bohemian Shimokitazawa, this urban sanctuary bridges old and new Tokyo.
How to Book here?
You can book here with Agoda.
Local Tip: Tokyu Stay is Truely Reliable Hotel, Find out More in Detail Here
7. Aoyama Grand Hotel
Sophisticated Urban Retreat For Design-Conscious Travelers in Harajuku
📍Area: Gaienmae, near Harajuku
⭐Review Score: 9.3 (Wonderful)
🛌# of Rooms: 42
Show full description
Nestled in Tokyo’s trendiest neighborhood and fashion district, this architectural gem combines minimalist design with intimate luxury.
Located steps from designer boutiques and stylish cafes, this hideaway offers complimentary minibars and personalized welcomes.
How to Book here?
You can book here with Agoda or Booking.com.
Tokyo’s Ramen is Amazing – Try it Yourself: Shibuya Ramen Tour with 6 Stops🍜
8. The Lively Tokyo Azabujuban
Stylish Boutique Stay in Upscale Azabujuban District
📍Area: Azabujuban, behind Roppongi Hills
⭐Review Score: 8.7 (Excellent)
🛌# of Rooms: 62
Show full description
Situated in Tokyo’s sophisticated enclave and gourmet destination, this boutique hotel combines modern style with upscale comfort.
Steps from chic restaurants and trendy bars, this urban retreat offers a stylish rooftop lounge and welcoming social space.
How to Book here?
You can book here with Agoda or Booking.com.
👉 Wild Shinjuku Night? Try this: Bar Hopping Night Tour!
9. Nohga Hotel Ueno Tokyo
Modern Art-Inspired Haven Minutes From Cultural Ueno
📍Area: 3 min to Ueno Station
⭐Review Score: 9.0 (Wonderful)
🛌# of Rooms: 130
Show full description
Nestled in Tokyo’s cultural heart and museum district, this design-forward hotel elevates the boutique stay experience with artful touches.
A short walk from Ueno Station and the historic park, this refined retreat features curated amenities and serene modern spaces.
How to Book here?
You can book here with Agoda or Booking.com.
Next Ideas on Things to Do? Read Next: 15 Top Activites in Tokyo
10. hotel hisoca ikebukuro
Boutique Hotel With Private Sauna in Every Room in Ikebukuro
📍Area: 2 min to Ikebukuro Station
⭐Review Score: 9.4 (Wonderful)
🛌# of Rooms: 32
Show full description
Hidden in Tokyo’s lively district and shopping hub, this intimate 32-room boutique spot offers a perfect blend of style and comfort.
A quick walk from the station, each room features a personal sauna and designer touches that make every stay special.
How to Book here?
You can book here with Agoda or Booking.com.
Shibuya is Great, so as Shinjuku! Read Next: 14 Best Budget Hotels in Shinjuku
11. Hotel 1899 Tokyo
Tea Lover’s Haven Near Tokyo Tower: Where Tradition Meets Modern Luxury
📍Area: 10 min to Shinbashi Station
⭐Review Score: 9.2 (Wonderful)
🛌# of Rooms: 63
Show full description
This intimate matcha-themed retreat offers a unique blend of traditional tea ceremonies and contemporary comfort in the heart of Tokyo.
The elegant tea counter welcomes guests with artisanal green tea selections, while spacious rooms provide a serene escape from the city bustle.
How to Book here?
You can book here with Agoda or Booking.com.
Budget Stay Tips: Best Uber Eats Restaurant in Shibuya🍜🍣
12. Shiba Park Hotel
Literary Haven Near Tokyo Tower: A Cozy Retreat For Book-Loving Travelers
📍Area: 4 min to Daimon Station, near Tokyo Tower
⭐Review Score: 8.8 (Excellent)
🛌# of Rooms: 199
Show full description
This book-themed boutique hotel delights guests with charming libraries on each floor and an elegant lounge perfect for afternoon reading.
The tranquil park-side location offers easy access to city highlights, while spacious rooms provide a comfortable retreat with premium amenities.
How to Book here?
You can book here with Agoda or Booking.com.
Prefer Newest Hotels? Read This: 11 Best New Hotels in Tokyo 2024
Discover Tokyo’s Finest Boutique Hotels
While Tokyo offers numerous hotels, many are international chains that seasoned travelers might find predictable. These twelve boutique properties provide a fresh perspective, offering unique experiences for those seeking something beyond ordinary.
Here at Locals in Japan, we’re passionate about helping you discover hidden gems across Japanese cities like Tokyo and Osaka. From accommodation tips to activities, explore our posts to plan your perfect Japanese adventure.
Last-minute trip to Tokyo?
Let us help!
🏠 Best Tokyo Hotels
Top Luxury Hotel: Palace Hotel Tokyo (⭐ 9.5)
Best Ryokan: Hoshinoya Tokyo (⭐ 9.1)
Best Upper Mid: MUJI HOTEL GINZA (⭐ 9.1)
Best Theme-hotel: Disneyland Hotel (⭐ 9.6)
Discover more Tokyo hotels here
🙋 Best Tokyo Activities
Go-Kart in Shibuya (⭐ 4.9/5)
Tokyo Samurai Show (2 Drinks) (⭐ 4.2/5)
Mt. Fuji & Hakone Day Trip (⭐ 4.5/5)
teamLab Borderless Tokyo (⭐ 4.8/5)
Kimono Rental & Photo Shooting (⭐ 4.9/5)
🛬 Need a Tokyo Airport Transfer?
Book your Tokyo airport (HND, NRT) transfer here
🚘 Japan Car Rental
Find the best Japan car rental deals here
📲 Get an eSim For Japan Trip
Stay connected in Japan: Hassle-free eSIM for your adventure.
Written and updated by:
