Probably not enough info, and I can post the code if it helps...but..
I generate a tool path in Meshcam ( only been playing with it for a week or so ) and it's paths sometimes defy logic, but I can live with that. What I can't live with is during a roughing cut it will mill down my "wood" to say 1.5" and then for some reason call a line that takes a path clear a across un-milled stock and my machine attempts to cut through 1.5" of wood. Needless to say it's bad news all around.
Is it a bug, is the responsibility on me to review the code line by line ( 4000+ ) and preview on other software to be sure that it doesn't do this.
My projects take 4 hours to cut, I'm afraid to walk away from the machine.