I Adjust Cherry Last
Mark Mandell - Gone Round In New Jersey
Have confronted cherry's variation in a number of pieces. Issues I had was its photoreactivity. I had better results in adjusting parts after I first got the piece to darken naturally with a couple days' worth of suntan. What started out as lighter color in the raw would (sometimes) darken a bit more. "Problem" is, if you blend the color of the raw wood, the blend may fail when the untreated parts naturally darken more than the dyed/stained parts leaving you back where you started.
What I settled on is to adjust the color by either hand or spray application of tinted shellac.
This piece was pigment stained but blended with shellac before applying the top coat 
This one had "cherry" watco applied and then tinted shellac used to blend the cherry sections a bit. 
The tint I use is a mix of Medium Brown with a touch of Amber and Red