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These are the Billboard R&B singles chart number-one singles of 2006.
Chart history
| † | Indicates best-charting R&B single of 2006 |
| Issue date | Song | Artist |
|---|---|---|
| January 7 | " Be Without You" † | Mary J. Blige |
| January 14 | ||
| January 21 | ||
| January 28 | ||
| February 4 | ||
| February 11 | ||
| February 18 | ||
| February 25 | ||
| March 4 | ||
| March 11 | ||
| March 18 | ||
| March 25 | ||
| April 1 | ||
| April 8 | ||
| April 15 | ||
| April 22 | " What You Know" | T.I. |
| April 29 | ||
| May 6 | ||
| May 13 | ||
| May 20 | ||
| May 27 | ||
| June 3 | " It's Goin' Down" | Yung Joc |
| June 10 | ||
| June 17 | ||
| June 24 | ||
| July 1 | ||
| July 8 | ||
| July 15 | ||
| July 22 | ||
| July 29 | " Snap Yo Fingers" | Lil Jon featuring E-40 and Sean Paul of the YoungbloodZ |
| August 5 | " Me & U" | Cassie |
| August 12 | " Shoulder Lean" | Young Dro featuring T.I. |
| August 19 | ||
| August 26 | ||
| September 2 | " Déjà Vu" | Beyoncé featuring Jay Z |
| September 9 | ||
| September 16 | " Pullin' Me Back" | Chingy featuring Tyrese |
| September 23 | " Call on Me" | Janet with Nelly |
| September 30 | "Pullin' Me Back" | Chingy featuring Tyrese |
| October 7 | "Call on Me" | Janet with Nelly |
| October 14 | " Say Goodbye" | Chris Brown |
| October 21 | ||
| October 28 | " Money Maker" | Ludacris featuring Pharrell |
| November 4 | "Say Goodbye" | Chris Brown |
| November 11 | ||
| November 18 | ||
| November 25 | ||
| December 2 | " Irreplaceable" | Beyoncé |
| December 9 | ||
| December 16 | ||
| December 23 | ||
| December 30 |