The highest-selling singles in Japan are ranked in the Oricon Singles Chart, which is published by Oricon Style magazine. The data are compiled by Oricon based on each singles' physical sales. This list includes the singles that reached the number one place on that chart in 1969.
| Issue date | Song | Artist(s) | Ref. |
|---|---|---|---|
| January 6 | "Koi no Kisetsu" | [1] | |
| January 13 | |||
| January 20 | |||
| January 27 | "Those Were the Days" Japanese title: | Mary Hopkin | |
| February 3 | "Namida no Kisetsu" | Pinky & Killers | |
| February 10 | "" | Ayumi Ishida | |
| February 17 | |||
| February 24 | |||
| March 3 | |||
| March 10 | |||
| March 17 | |||
| March 24 | |||
| March 31 | |||
| April 7 | |||
| April 14 | "" | Saori Yuki | |
| April 21 | |||
| April 28 | |||
| May 5 | |||
| May 12 | |||
| May 19 | |||
| May 26 | |||
| June 2 | |||
| June 9 | "" | Shinichi Mori | |
| June 16 | |||
| June 23 | |||
| June 30 | |||
| July 7 | |||
| June 14 | "" | Ryoko Moriyama | |
| June 21 | |||
| June 28 | |||
| August 4 | |||
| August 11 | |||
| August 18 | |||
| August 25 | |||
| September 1 | |||
| September 8 | "" | Mina Aoe | |
| September 15 | |||
| September 22 | |||
| September 29 | |||
| October 6 | |||
| October 13 | |||
| October 20 | "" | Mieko Hirota | |
| October 27 | |||
| November 3 | |||
| November 10 | "Kuroneko no Tango" | ||
| November 17 | |||
| November 24 | |||
| December 1 | |||
| December 8 | |||
| December 15 | |||
| December 22 | |||
| December 29 |