
Aketajawe-Lolobata National Park is a national park on Halmahera, the biggest island in the North Maluku province of Indonesia. The park is considered by BirdLife International to be vital for the survival of at least 23 endemic bird species. Aketajawe-Lolobata, which has an area of 167,300 hectares, was declared a national park in 2004.

Alas Purwo National Park is situated on Blambangan Peninsula in the Banyuwangi Regency, at the southeastern tip of East Java province. The park is famous for its wild Banteng and surfing location at Grajagan Bay.

Baluran National Park is located in Situbondo Regency, East Java, Indonesia. It has a relatively dry climate and mainly consists of savanna (40%), as well as lowland forests, mangrove forests and hills, with Mount Baluran (1,247m) as its highest peak.

Bantimurung-Bulusaraung National Park is a national park in South Sulawesi in Indonesia. The park contains the Rammang-Rammang karst area, the second largest karst area known in the world after the one in South-Eastern China.

Batang Gadis is a national park covering 1,080 km2 in North Sumatra province, Indonesia extending between 300 and 2,145 metres altitude. It is named after the Batang Gadis river that flows thorough the park. Signs of the endangered Sumatran tiger and the threatened Asian golden cat, leopard cat and clouded leopard were seen in the park. The protection of Batang Gadis as a national park is part of a plan to create the Northern Sumatra biodiversity conservation corridor, which would be connected, via a series of protected areas and forests, to Gunung Leuser National Park in the north of the island.

The Berbak National Park in Sumatra island, Jambi province of Indonesia, forms part of the largest undisturbed swamp forest in southeastern Asia, and the peat swamp forest with the greatest number of palm species. Protected since 1935 under Dutch colonial law and later declared a national park, it has been also recognised as a wetland of international importance.

Betung Kerihun National Park is a national park in the province of West Kalimantan on the island of Borneo, Indonesia. It is located inland, along the Malaysian border. The park was established in 1995, and has a total area of 8,000 km2 (3,100 sq mi) or about 5.5 percent of West Kalimantan Province area. Together with the 2,000 km2 (800 sq mi) Lanjak Entimau Wildlife Sanctuary in Malaysia, it has been proposed to form a World Heritage Site named the "Transborder Rainforest Heritage of Borneo".

Bogani Nani Wartabone National Park is a 2,871 km2 (1,108 mi2) National Park on Minahassa Peninsula on Sulawesi island, Indonesia. Formerly known as Dumoga Bone National Park, it was established in 1991 and was renamed in honour of Nani Wartabone, a local resistance fighter who drove the Japanese from Gorontalo during World War II. The park has been identified by Wildlife Conservation Society as the single most important site for the conservation of Sulawesi wildlife and is home to many species endemic to Sulawesi.
Bromo Tengger Semeru National Park, known locally as Taman Nasional Bromo Tengger Semeru (TNBTS) is a national park located in East Java, Indonesia, to the east of Malang and Lumajang, to the south of Pasuruan and Probolinggo, and to the southeast of Surabaya, the capital of East Java. It is the only conservation area in Indonesia that has a sand sea, the Tengger Sand Sea, across which is the caldera of an ancient volcano (Tengger) from which four new volcanic cones have emerged. This unique feature covers a total area of 5,250 hectares at an altitude of about 2,100 meters (6,900 ft). The massif also contains the highest mountain in Java, Mount Semeru, four lakes and 50 rivers. It is named after the Tengger tribe.

Bukit Baka Bukit Raya National Park is a national park located on Borneo Island, Indonesia. It is named after the mountains of Bukit Baka and Bukit Raya, part of the Schwaner mountain range at the border of Central and West Kalimantan.

Bukit Barisan Selatan National Park is a national park in Sumatra, Indonesia. The park located along the Bukit Barisan mountain range, has a total area of 3,568 km2, and spans three provinces: Lampung, Bengkulu, and South Sumatra. Together with Gunung Leuser and Kerinci Seblat national parks it forms a World Heritage Site, Tropical Rainforest Heritage of Sumatra.

Bukit Duabelas is a relatively small national park covering 605 km² in Sumatra, Indonesia. It is representative of lowland tropical rain forests in the province of Jambi. Only the northern part of the park consists of primary rainforest, while the rest is secondary forest, as result of previous logging. The park is inhabited by the indigenous Orang Rimba.

Bukit Tigapuluh National Park - The Thirty Hills - is a 143,223 hectare National Park in eastern Sumatra, consisting primarily of tropical lowland forest, largely in Riau province, with a smaller part of 33,000 ha in Jambi province. It is famous as one of the last refuges of endangered species such as the Sumatran orangutan, Sumatran tiger, Sumatran elephant, and Asian tapir, as well as many endangered bird species. It forms part of the Tesso Nilo Complex biodiversity hotspot. The Park is inhabited by the indigenous peoples of the Orang Rimba and Talang Mamak tribes.
Bunaken National Park is a marine park in the north of Sulawesi island, Indonesia. The park is located near the centre of the Coral Triangle, providing habitat to 390 species of coral as well as many fish, mollusc, reptile and marine mammal species. The park is representative of Indonesian tropical water ecosystems, consisting of seagrass plain, coral reef, and coastal ecosystems.

Gandang Dewata National Park is located at Mamasa Regency, West Sulawesi, Indonesia.

Karimunjawa National Park, also Crimon Java National Park, is a national marine park designated in the Karimun Java archipelago, Jepara Regency, Central Java, Indonesia. It lies 80 km north west of Jepara, Central Java in the Java Sea. The national park was formally declared as Marine Protection Area in 2001. Based on popular local myth, this archipelago was discovered by Sunan Nyamplungan, the nephew of Sunan Kudus who is one of the Wali Sanga.
Kayan Mentarang National Park is a densely forested national park in North Kalimantan province, Borneo Island, Indonesia. The national park is named after a great dispersed Mentarang mountain trails plateau of Apau Kayan which covers the entire park from Datadian area in south region to Apau Ping area in mid region until Long Bawan in north region.

Kelimutu National Park is located on the island of Flores, East Nusa Tenggara, Indonesia. It consists of a region with hills and mountains, with Mount Kelibara as its highest peak. Mount Kelimutu, which has the three coloured lakes, is also located in this national park. This natural attraction is a destination for tourists.

Kepulauan Togean National Park is a largely marine national park, including the Togian Islands, near Sulawesi island of Indonesia.

Kerinci Seblat National Park is the largest national park on the island of Sumatra, Indonesia. It has a total area of 13,791 km2, and spans four provinces: West Sumatra, Jambi, Bengkulu, and South Sumatra.

Komodo National Park is a national park in Indonesia located within the Lesser Sunda Islands in the border region between the provinces of East Nusa Tenggara and West Nusa Tenggara. The park includes the three larger islands Komodo, Padar and Rinca, and 26 smaller ones, with a total area of 1,733 km2. The national park was founded in 1980 to protect the Komodo dragon, the world's largest lizard. Later it was dedicated to protecting other species, including marine species. In 1991 the national park was declared a UNESCO World Heritage Site.

Kutai National Park is a lowland national park located on the east coast of Borneo Island, in the East Kalimantan province of Indonesia, ranging approximately 10 to 50 km north of the equator.

Laiwangi Wanggameti National Park is located on the island of Sumba in Indonesia. All forests types that exist on this island can be found in this national park. Some endemic plant species are protected in this national park, such as Syzygium species, Alstonia scholaris, Ficus species, Canarium oleosum, Cinnamomum zeylanicum, Myristica littoralis, Toona sureni, Sterculia foetida, Schleichera oleosa, and Palaquium obovatum.

The Danau Sentarum National Park is a national park protecting one of the world's most biodiverse lake systems, located in the heart of Borneo Island, Kapuas Hulu Regency, West Kalimantan Province, Indonesia. It lies in the upper Kapuas River tectonic basin some 700 kilometres upstream from the delta. The basin is a vast floodplain, consisting of about 20 seasonal lakes, freshwater swamp forest and peat swamp forest. Local people call it as Lebak lebung (floodplain). The National Park is located in the western part of this basin, where three-quarters of the seasonal lakes occur. Approximately half of the park consists of lakes, while the other half consists of freshwater swamp forest.

Lore Lindu National Park is a protected area of forest on the Indonesian island of Sulawesi, in the province of Central Sulawesi. The Indonesian national park is 2,180 km² covering both lowland and montane forests. It provides habitat to numerous rare species, including 77 bird species endemic to Sulawesi. The national park is designated as part of the UNESCO World Network of Biosphere Reserves. In addition to its rich wildlife, the park also contains megaliths dating from before 1300 AD.

Manupeu Tanah Daru National Park is located on the island of Sumba in Indonesia. This national park consists lowland forests on steep slopes that rise up to ca. 600m.

Manusela National Park is located on Seram island, in the Maluku archipelago of Indonesia. It is made up of coastal forest, swamp forest, lowland and montane rainforest ecosystem types. Mount Binaiya at 3,027 meters, is the highest of the park's six mountains. Seram is remarkable for its high degree of localised bird endemism. The park also includes important karst landscapes. On Mount Hatu Saka, near the coast of Saleman-Sawai, it is the Goa Hatusaka, currently the deepest cave of the whole Indonesia.

Meru Betiri National Park is a national park in the province of East Java, Indonesia, extending over an area of 580 km2 of which a small part is marine (8.45 km2). The beaches of the park provide nesting grounds for endangered turtle species such as leatherback turtles, hawksbill turtles, green turtles, and olive ridley turtles.

Mount Ciremai National Park is located around 50 km to the south of the city of Cirebon in West Java, Indonesia. The park extends into the Kuningan and Majalengka regencies south of Cirebon. The park surrounds Mt Ceremai, an active volcano, the highest peak in West Java. Groups of hikers, including parties of students, often climb the peak although care is needed.

Mount Gede Pangrango National Park is a national park in West Java, Indonesia. The park is centred on two volcanoes—Mount Gede and Mount Pangrango—and is 150 km² in area.

Mount Halimun Salak National Park is a 400 km2 conservation area in the Indonesian province of West Java on the island of Java. Established in 1992, the park comprises two mountains, Mount Salak and Mount Halimun with an 11-kilometer forest corridor. It is located near the better known Mount Gede Pangrango National Park, but the national park should be accessed from Sukabumi, 2 hours drive to the administration post and then 2 hours drive again to Cikaniki post gate.
Gunung Leuser National Park is a national park covering 7,927 km2 in northern Sumatra, Indonesia, straddling the border of North Sumatra and Aceh provinces, a fourth portion and three-fourths portion, respectively. The national park, settled in the Barisan mountain range, is named after Mount Leuser (3,119 m), and protects a wide range of ecosystems. An orangutan sanctuary at Bukit Lawang is located within the park. Together with Bukit Barisan Selatan and Kerinci Seblat National Parks, it forms a World Heritage Site, the Tropical Rainforest Heritage of Sumatra.

Mount Merapi, Gunung Merapi, is an active stratovolcano located on the border between Central Java and Special Region of Yogyakarta provinces, Indonesia. It is the most active volcano in Indonesia and has erupted regularly since 1548. It is located approximately 28 kilometres (17 mi) north of Yogyakarta city which has a population of 2.4 million, and thousands of people live on the flanks of the volcano, with villages as high as 1,700 metres (5,600 ft) above sea level.

Mount Merbabu is a dormant stratovolcano in Central Java province on the Indonesian island of Java. The name Merbabu could be loosely translated as 'Mountain of Ash' from the Javanese combined words; Meru means "mountain" and awu or abu means "ash".

Mount Palung National Park lies on the island of Borneo, in the Indonesian province of West Kalimantan, north of Ketapang and east of Sukadana.

Mount Rinjani National Park is located on the island of Lombok, Indonesia in the North Lombok Regency. The park covers about 41,330 hectares and consists of mountainous areas. Mount Rinjani, which is the third highest volcano of Indonesia at 3,726 metres (12,224 ft), is located in this national park, giving this park its name.

Rawa Aopa Watumohai National Park is a national park on the Indonesian island of Sulawesi, in the province of South East Sulawesi. It was declared in 1989, and has an area of 1,050 km². The park ranges from sea level to the altitude of 981 m. It contains the Aopa peat swamp, the largest in Sulawesi, and is recognised as a wetland of international importance.

Tesso Nilo National Park is a national park in Riau Province, Sumatra, Indonesia. It was declared a national park by the Indonesian government in 2004. The original area of the park was 385.76 km2, but the decision has been made to expand it to 1000 km2. Tesso Nilo National Park houses some of the largest coherent lowland rainforests remaining on Sumatra. The Center for Biodiversity Management has surveyed over 1,800 plots in tropical forests around the world. They found that no other plot has as many vascular plants as in Tesso Nilo. Indonesian Institute of Sciences (LIPI) surveyed forests throughout Sumatra, and also found that Tesso Nilo housed by far the most species.

The Rimba Raya Biodiversity Reserve, nearly the size of Singapore, consists of 64,000 hectares of bio-diverse tropical peat swamp forest that contain as much as 1,000 plant and animal species per hectare and is one of the most highly endangered ecosystems on the planet. The project area and ongoing initiatives focus on environmental conservation, community outreach, and climate control. Rimba Raya is home to one of the few remaining relic populations of wild orangutans and is the largest privately funded orangutan reserve in the world. The area is also one of the world’s largest repositories of carbon. Rimba Raya is the world’s largest REDD+ project -Reduced Emissions from (Avoided) Deforestation and Degradation (REDD). The project developer, InfiniteEARTH, is an industry pioneer, delivering the world’s first REDD methodology in 2009.

Sabangau National Park is a national park in Central Kalimantan, a province of Indonesia in Kalimantan, the Indonesian part of the island of Borneo established in 2004. Between 1980 and 1995 the site was a massive logging concessions area. After 1995, the park became a site for illegal logging, which resulted in up to 85 percent of the 568,700-hectare total park area being destroyed. By 2012, less than 1 percent of the park's total area has been reforested and several centuries is needed to restore it to its pre-logged state.

Sembilang National Park is a national park covering 2,051 km2 along the east coast of Sumatra, Indonesia. The park is dominated by swamps as peat forests, like the neighbouring Berbak National Park, and both parks are Ramsar wetlands of international importance. The park is considered to have the most complex shorebird community in the world, with 213 species recorded, and supports the world's largest breeding colony of milky storks. From Palembang to the Sembilang National Park needs one hour drive plus one and a half hour by boat and then one hour overland.

Siberut National Park comprises 1,905 km2 (47%) of the island of Siberut in the Mentawai Islands of West Sumatra, Indonesia. The whole island including the national park is part of the World Network of Biosphere Reserves.

Taka Bonerate National Park is a marine park which includes the Takabonerate atoll islands, located in the Flores Sea, south of Sulawesi island of Indonesia.

Tanjung Puting National Park is a national park in Indonesia located in the southeast part of West Kotawaringin Regency in the Indonesian province of Central Kalimantan. The nearest main town is the capital of the Regency, Pangkalan Bun. The park is famous for its orangutan conservation.
The Thousand Islands are a chain of islands to the north of Jakarta's coast. It forms the only regency of Jakarta, the capital of Indonesia. It consists of a string of 342 islands stretching 45 km (28 mi) north into the Java Sea at West Jakarta Bay and in fact north of Banten Province.

Ujung Kulon National Park is at the westernmost tip of Java, in Banten province of Indonesia. It includes the volcanic island group of Krakatoa in Lampung province, and other islands including Panaitan, as well as smaller offshore islets such as Handeuleum and Peucang in the Sunda Strait.

Wakatobi National Park is a marine national park in Southeast Sulawesi, Indonesia. The name of Wakatobi is a portmanteau of the four main Tukangbesi Islands: Wangi-wangi, Kaledupa, Tomia, and Binongko. Since 2005 the park is listed as a tentative World Heritage Site.

Way Kambas National Park is a national park covering 1,300 square kilometres in Lampung province, southern Sumatra, Indonesia. It consists of swamp forest and lowland rain forest, mostly of secondary growth as result of extensive logging in the 1960s and 1970s. Despite decreasing populations, the park still has a few critically endangered Sumatran tigers, Sumatran elephants and Sumatran rhinoceroses. It also provides excellent birdwatching, with the rare white-winged wood duck among the over 400 species present in the park.

West Bali National Park is a national park located in Buleleng Regency, Bali, Indonesia. The park covers around 190 square kilometres (73 sq mi), of which are 158 square kilometres (61 sq mi) land and the remainder is sea. This is approximately 3% of Bali's total land area. To the north, it includes a 1,000-metre (3,300 ft) long beach, reef and islets. A seaport at Gilimanuk is west of the park, and the village of Goris is to the east. The National Park can be reached by roads from Gilimanuk and Singaraja, or by using ferries from Ketapang, East Java.