| 1 | MS000251 | Museum Affandi | Jl. Laksda Adisucipto No. 167 | Sleman | Sleman |
| 2 | MS000485 | Museum Bahari Yogyakarta | Jl. R.E. Martadinata No. 69 | Wirobrajan | Kota Yogyakarta |
| 3 | MS000254 | Museum Batik Yogyakarta | Jl. Dr. Sutomo No. 13A | Danurejan | Kota Yogyakarta |
| 4 | MS000242 | Museum Benteng Vredeburg | Jl. Jenderal Ahmad Yani No. 6 | Gondomanan | Kota Yogyakarta |
| 5 | MS000241 | Museum Biologi UGM | Jl. Sultan Agung No. 22 | Mergangsan | Kota Yogyakarta |
| 6 | MS000278 | Museum Candi Prambanan | Jl. Jogja-Solo KM 16 | Prambanan | Sleman |
| 7 | MS000250 | Museum Dewantara Kirti Griya | Jl. Tamansiswa No. 31 | Pakualaman | Kota Yogyakarta |
| 8 | MS000486 | Museum Gempa Prof. Dr. Sarwidi | Jl. Malangyudo No. 25 | Pakem | Sleman |
| 9 | MS000244 | Museum Geoteknologi Mineral | Kampus II UPN Veteran | Depok | Sleman |
| 10 | MS000272 | Museum Gumuk Pasir | Pantai Parangtritis dan Parang Kusumo | Kretek | Bantul |
| 11 | MS000269 | Museum Gunungapi Merapi | Jl. Boyong, Hargobinangun | Pakem | Sleman |
| 12 | MS000275 | Museum Istana Kepresidenan Yogyakarta | Jl. Malioboro, Kompleks Gedung Agung | Gondomanan | Kota Yogyakarta |
| 13 | MS000258 | Museum Kayu Wanagama | Kantor Hutan Pendidikan Wanagama, Banaran | Playen | Gunungkidul |
| 14 | MS000249 | Museum Keraton Yogyakarta | Jl. Rotowijayan No. 1 | Kraton | Kota Yogyakarta |
| 15 | MS000268 | Museum Memorial Jenderal Besar H. M. Soeharto | Dusun Kemusuk, Argomulyo | Sedayu | Bantul |
| 16 | MS000260 | Museum Monumen Kesatuan Pergerakan Wanita Indonesia | Jl. Laksda Adisucipto No. 88 | Depok | Sleman |
| 17 | MS000255 | Museum Monumen Pangeran Diponegoro | Jl. HOS Cokroaminoto TR III No. 430 | Tegalrejo | Kota Yogyakarta |
| 18 | MS000253 | Museum Monumen Yogya Kembali | Jl. Ring Road Utara, Waras, Sariharjo | Ngaglik | Sleman |
| 19 | MS000270 | Museum Paleoantropologi | Jl. Medika, Sendowo, Sinduadi | Mlati | Sleman |
| 20 | MS000274 | Museum Pendidikan Indonesia Universitas Negeri Yogyakarta | Kampus Pusat Universitas Negeri Yogyakarta | Depok | Sleman |