Used CA for decades with no problems. What type of CA are you using?
Me, too, no issue. It probably depends on the quality of the fits. Fit it up tight enough and there should be negligible glue at the surface, no matter what kind you use.
I also note that it is generally desirable to use low-angle cuts, to make sure there isn't just a straight line perpendicular to the grain - typically a 12:1 angle, 5ish degrees. Trying to do that in one diagonal cut wastes a lot of wood, so I usually do multiple cuts, like finger joint used in woodworking. This also has the effect of breaking up any straight lines that a glue line would cause. The more random, the better, probably. They don't have to be terribly accurate, eyeball it on one side of the joint, then use the first part as a template to cut the other part.
If you are really concerned about glue lines, use model cement instead of Hot Stuff.
This is a great way to put patches in sheeting, as well. Cut the edges of the patch with a bunch of grainwise low-angle cuts, slap it on the airplane and cut it using the patch as a guide to make the hole match the patch, then just glue it in. We had to do that with Paul Ferrell's airplane at some NATs (maybe the year he won Senior), when the spinner came off in a practice flight and poked a hole in the wing right before we left. 20 minutes in Ted's garage, it was all patched up and structurally sound, sand it down and finish it later.
I might do some example cases for illustration later, I have LOTS of scrap in the balsa scrap box.
Brett