My preferred color-matching method at this point in time is g-force's RGBMatch.
I'm still holding out for something better, but in my experience so far, RGBMatch gets you at least 80% of the way there if you do it shot-by-shot.
Using RGBMatch frame-by-frame results in too much flicker and color balance fluctuations. I managed to get ColourLike to work on a frame-by-frame basis using ScriptClip and it exhibits the same kind of flicker and fluctuations, unfortunately.