Small islands offer what many honeymooners are looking for privacy, beauty, and a sense of escape. In Indonesia, that experience is taken to another level. These islands are ideal for couples who want to slow down and enjoy uninterrupted time together, surrounded by natural wonders and away from the crowds. Think uncrowded beaches, luxurious overwater villas, world-class diving, and intimate resorts tucked into the landscape. The atmosphere is quiet and romantic, the views are unforgettable, and the pace is just right for newlyweds beginning their journey together.
Each island featured below has its own distinct charm and is known for offering exceptional honeymoon experiences. Whether you’re planning a short retreat or a longer romantic adventure, these are ten of the best small islands in Indonesia to consider for a truly memorable honeymoon.
1. Wakatobi Island – Southeast Sulawesi
Located in Southeast Sulawesi, Wakatobi Island is a rare gem in Indonesia’s Coral Triangle and home to one of the richest marine ecosystems on Earth. Known for its crystal-clear waters and vibrant coral reefs, Wakatobi is a diver’s paradise and an internationally acclaimed destination for underwater exploration. Beyond its ecological prestige, Wakatobi offers a serene, remote setting that feels made for romance.
Couples can snorkel hand-in-hand through technicolour coral gardens, enjoy private beach dinners beneath the stars, or simply unwind in peaceful luxury. The island features premium resorts such as Wakatobi Dive Resort, Naya Matahora Island Resort, and Patuno Resort Wakatobi, each offering personalised honeymoon packages with ocean views and eco-luxury comforts. With easy access via Matahora Airport (WNI), the destination delivers both exclusivity and convenience.
Wakatobi is perfect for honeymooners who crave seclusion, natural beauty, and meaningful connection. The quiet atmosphere, rare biodiversity, and tailored hospitality create a one-of-a-kind setting for beginning life together.
2. Gangga Island – North Sulawesi
In North Sulawesi, Gangga Island presents a captivating mix of lush greenery and pristine beaches, offering a secluded retreat far from mainstream tourist trails. This small island is ideal for couples seeking a slower pace and deeper connection. The Gangga Island Resort & Spa, set along a stretch of white sand, provides beachfront elegance and direct access to some of Sulawesi’s most vibrant marine life.
Each day offers a new way to connect sunrise yoga sessions by the sea, tranquil spa treatments using local botanicals, or diving excursions into colourful reefs. Guests enjoy personalised service in a boutique setting that feels both intimate and expansive.
Gangga Island is not just a destination; it’s an immersive experience filled with serenity, culture, and natural beauty. Accessible via a scenic transfer from Manado’s Sam Ratulangi International Airport (MDC) and a short boat ride, it offers just enough remoteness to feel exclusive without being inaccessible.
For honeymooners, this island delivers a perfect blend of privacy and authenticity, making it easy to disconnect from the world and focus entirely on each other.
3. Moyo Island – Sumbawa
Moyo Island, located just off the coast of Sumbawa in West Nusa Tenggara, is a haven for honeymooners in search of luxury with a sense of adventure. As a protected nature reserve, the island is renowned for its cascading waterfalls, jungle trails, and rare wildlife species—all set against the backdrop of the Flores Sea.
The centrepiece of the island’s appeal is Amanwana, a world-class tented resort offering barefoot luxury with immersive natural surroundings. Here, couples can enjoy oceanfront tented suites, dine under the canopy of stars, snorkel in vibrant coral gardens, or trek through rainforest to the legendary Mata Jitu Waterfalls. Each experience is curated to create moments of wonder and togetherness.
Moyo Island’s appeal lies in its balance of isolation and indulgence. Direct flights from Bali’s Ngurah Rai International Airport (DPS) to Sumbawa Besar make access relatively simple, followed by a scenic 40-minute boat ride to the island.
For couples who want a honeymoon that combines elegance, privacy, and a deep connection to nature, Moyo Island is a truly unforgettable escape.
4. Bawah Island
Set within the remote Anambas Archipelago in the Riau Islands, Bawah Island is an exclusive paradise defined by turquoise lagoons, overwater villas, and barefoot luxury. Accessible only by seaplane to Letung Airport, Bawah offers complete seclusion surrounded by untouched coral reefs and lush forested hills.
The island’s crown jewel, Bawah Reserve, delivers a world-class honeymoon experience focused on tranquillity, wellness, and reconnection. Couples can snorkel in protected marine zones, kayak through glassy waters, or indulge in holistic treatments at the island’s eco-conscious spa. With a no-tech philosophy and a strong commitment to sustainability, Bawah encourages you to slow down and savour every moment together.
Bawah Island is ideal for honeymooners seeking a refined escape in nature’s embrace, where luxury feels organic, and every experience is deeply personal.
5. Siladen Island – North Sulawesi
In the heart of North Sulawesi’s Bunaken National Marine Park, Siladen Island offers a peaceful hideaway surrounded by rich marine biodiversity and panoramic sea views. This lesser-known gem is perfect for couples who love the ocean and value tranquillity.
The island’s premier retreat, Siladen Resort & Spa, combines upscale accommodation with thoughtful service. Each villa is designed for comfort and seclusion, with views of the turquoise sea and the majestic Manado Tua volcano. Days are spent exploring world-class dive sites or snorkelling right off the beach, followed by romantic sunset dinners overlooking the horizon.
With easy access via Manado Airport (MDC), Siladen Island is an accessible yet serene destination where natural beauty and intimacy converge, perfect for honeymooners looking for a relaxing and immersive escape.
6. Lembeh Island – North Sulawesi
Off the coast of North Sulawesi, Lembeh Island is a rare treasure for adventurous couples. Famed for its muck diving and surreal macro marine life, Lembeh is unlike any other destination in Indonesia. This island offers a unique honeymoon experience beneath the surface, where you can discover strange and beautiful creatures together in one of the world’s most celebrated dive spots.
Lembeh Luxury Dive Resort caters exclusively to guests seeking a private and elevated stay. Each villa is designed with ocean-facing views, creating a romantic and serene base for both relaxation and underwater adventure. Beyond diving, the island’s green hills and quiet beaches provide plenty of space for unwinding together.
To reach Lembeh, couples fly into Manado International Airport, travel by car to Bitung city, then enjoy a short boat ride to the island. The journey enhances the sense of retreat, making it an ideal destination for honeymooners who value discovery, nature, and privacy.
7. Telunas Island
Tucked away in the Riau Islands just south of Singapore, Telunas Island offers a refreshing blend of rustic comfort and natural serenity. This private retreat is known for its overwater villas, traditional timber architecture, and scenic seascapes, creating a charming contrast to the region’s urban bustle.
Here, couples can enjoy beach bonfires under the stars, slow canoe rides along calm shores, or indulge in soothing massages rooted in Indonesian wellness traditions. The atmosphere is warm, simple, and unhurried—ideal for rekindling connection in a peaceful island setting.
Access is easy via Hang Nadim Airport (BTH) in Batam, followed by a scenic 45-minute land and boat transfer. Telunas is perfect for honeymooners seeking a soulful escape close to the city, where the pace slows and every moment is made to be shared.
8. Seraya Island
Located off the coast of Flores near Labuan Bajo, Seraya Island offers a tranquil paradise defined by white sands, crystal waters, and vibrant coral reefs. This small, eco-conscious island caters to couples seeking solitude and simplicity with a stunning natural backdrop.
The Seraya Resort Komodo blends barefoot luxury with sustainability, offering ocean-view bungalows that feel both remote and romantic. Spend your days snorkelling with reef fish, kayaking along the coast, or simply soaking up the sun with no interruptions.
With Komodo Airport just 2 kilometres away, Seraya is easily accessible yet blissfully removed from tourist crowds. For honeymooners craving privacy, natural beauty, and mindful design, Seraya Island is a perfect match.
9. Karimunjawa Island
Set in the calm waters of the Java Sea, the Karimunjawa Islands offer a dreamy setting for couples looking to slow down and savour each other’s company. The archipelago boasts powdery beaches, lush mangrove forests, and some of Indonesia’s most inviting blue lagoons.
Stay at Kura Kura Resort or one of the island’s boutique stays and enjoy activities like island hopping, snorkelling, or quiet beach walks under the stars. The mood is relaxed, the pace gentle, and the scenery unforgettable.
To get there, fly to Ahmad Yani International Airport in Semarang, then connect to Dewandaru Airport via a short domestic flight. Karimunjawa is an ideal honeymoon spot for couples who want understated charm, local character, and tropical beauty in every direction.
10. Raja Ampat Island
Located at the northwestern tip of the Bird’s Head Peninsula in West Papua, Raja Ampat is often celebrated as one of the world’s most breathtaking island groups. Its raw beauty, surreal seascapes, and unmatched biodiversity make it a dream setting for adventurous couples.
With over 1,500 islands, coves, and atolls, this region is a paradise for divers and nature lovers. Beneath the water lies the richest coral reef ecosystem on Earth, while above, limestone cliffs and emerald lagoons create postcard-perfect backdrops. Stay at Raja Ampat Dive Lodge or similar beachfront eco-resorts that provide seclusion, comfort, and direct access to extraordinary marine adventures.
Whether snorkelling over vibrant coral gardens, kayaking between karst islets, or sharing sunrise views from your private deck, every moment in Raja Ampat feels cinematic. Fly into Marinda Airport (RJM), also known as Raja Ampat Airport, located near Waisai, the gateway to the archipelago.
For honeymooners who seek a deeper connection through nature, Raja Ampat offers not just beauty, but a sense of awe—perfect for celebrating a love that feels boundless.
Each of these islands offers something rare, whether it’s unmatched marine biodiversity, soulful seclusion, or barefoot luxury on private beaches. Choosing your ideal honeymoon escape depends on the experiences you want to share.
Let us help you turn your dream into reality. LuxeIndonesia offers luxury honeymoon tours in Indonesia and begins your love story in paradise with LuxeIndonesia Travel.