My method for cutting stringer notches is as follows:-
Firstly I mark either side of where the notch is to go with my scalpel blade. Then, using a triangular section needle file, I carefully start sanding between the two marks until the section between them has been removed. This is simply to create a guide for a file I have that not only just happens to be 1/16" wide, but also has a sanding edge on the thin 1/16" side too!
. It's then a simple matter of using this file to turn the 'V' shaped 1/16" wide notch into one that is also 1/16" deep.
If at any point the wood begins to disintegrate (or even before if I can clearly see that the wood is a bit weak or 'crumbly') I stop what I'm doing and immediately apply liquid cyano to the notch to either repair or strengthen it so as to continue sanding after it's soaked into the balsa and set. Using this process I would probably say that I have around a 99% success rate in avoiding the dreaded broken notch problem.