I tried a breakpoint in a similar model and it worked. I then realized that the function is not running; my Simulink error is a coder error.
Breakpoint in Simulink MATLAB function block not working
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I add a breakpoint to the code in my MATLAB function block in Simulink. I am running Simulink from a script using sim and it does not stop at the breakpoint. It is running the function because Simulink errors are being generated from functions called by the function block.