I thought that was in Lion? I'm still running Snow Leopard, and the white dot is still definitely there.
http://hints.macworld.com/article.php?story=2007101815375480
It toggles your dock between 3D and 2D. The 3D setting still has the dots, but they're very hard to see. So I was wrong about them disappearing entirely, but that's the change I was referring to.
If you still have the 2D look in Lion perhaps you ran this command previously under Leopard? I did, and the setting survived my upgrade to Lion, so I still have the 2D enabled.