List of best-selling singles in 1999 (Japan)
# List of best-selling singles in 1999 (Japan)

This is a list of the best-selling singles in 1999 in Japan, as reported by Oricon.

| Ranking | Single | Artist | Release | Sales |
| - | - | - | - | - |
| 1 | "Dango 3 Kyodai" | Kentarō Hayami & Ayumi Shigemori | March 3, 1999 (1999-03-03) | 2,918,000 |
| 2 | "Winter, Again" | Glay | February 3, 1999 (1999-02-03) | 1,638,000 |
| 3 | "A" | Ayumi Hamasaki | August 11, 1999 (1999-08-11) | 1,622,000 |
| 4 | "Energy Flow" | Ryuichi Sakamoto | May 26, 1999 (1999-05-26) | 1,519,000 |
| 5 | "Automatic" | Hikaru Utada | December 9, 1998 (1998-12-09) | 1,290,000 |
| 6 | "Addicted to You" | Hikaru Utada | November 10, 1999 (1999-11-10) | 1,290,000 |
| 7 | "Movin' On Without You" | Hikaru Utada | February 17, 1999 (1999-02-17) | 1,226,000 |
| 8 | "Love Machine" | Morning Musume | September 9, 1999 (1999-09-09) | 1,207,000 |
| 9 | "Be with You" | Glay | November 25, 1998 (1998-11-25) | 1,173,000 |
| 10 | "Heaven's Drive" | L'Arc-en-Ciel | April 21, 1999 (1999-04-21) | 1,124,000 |
| 11 | "Flower" | KinKi Kids | May 26, 1999 (1999-05-26) | 1,039,000 |
| 12 | "Boys & Girls" | Ayumi Hamasaki | July 14, 1999 (1999-07-14) | 1,033,000 |
| 13 | "Last Chance " | Something Else | December 23, 1998 (1998-12-23) | 998,000 |
