Dave,
It looks like you did something with the code, only one line was out of place this time but it was easily corrected by reversing the polyline.
I know this part is difficult due to the fact that people's setup will vary, but because there was no 'Tool Number' entered, there was no tool change command generated in the g-code.
The fact that the small clean up tool is only going to cut the sections that need it is really excellent.