The best selling music video in 1999 in Japan was サバイバル by GLAY.
| Rank | Artist | Video | Released |
| 1 | GLAY | サバイバル | 1999 |
| 2 | L'ARC-EN-CIEL | ハートに火をつけろ! | 1998 |
| 3 | GLAY | SUMMER OF 98 PURE SOUL IN STADIUM | 1998 |
| 4 | MORNING MUSUME (モーニング娘。) | ザ･ビデオ･LOVEマシーン | 1999 |
| 5 | GLAY | DOME TOUR ""PURE SOUL"" 1999 LIVE IN BIG EGG | 1999 |
| 6 | L'ARC-EN-CIEL | CHRONICLE | 1999 |
| 7 | SMAP | LIVE AMIGOS! | 1998 |
| 8 | JOHNNY’S JR. (ジャニーズJR.) | 素顔2 | 1999 |
| 9 | KINKI KIDS | KINKI KIDS 3DAYS PANIC! AT TOKYO DOME '98～'99 | 1999 |
| 10 | SPEED | SPEED ""TOUR RISE"" IN TOKYO DOME | 1999 |
Source: Oricon