I have studied the witness mark via several different cone profiles and can confirm the profile can be deep enough as to have no effect on further movement of the fuel pin.
Yes, smoke and EGT's can become problematic espessially if the AFC is rendered inop/bypassed.
There are different fuel pins as well. I cannot say for sure and one would need to confirm this with a body that has removed and measured several from different pump models. There likely is different lengths. They don't all look alike however I have not measured them.
The reverse lever moves the fuel pin. The reverse lever can (and will under the proper or improper conditions

) bottom out against the plug that contains the pin O ring. Thus when bottomed, the fuel control cone (profile) has no effect..... it has moved as far as it can.
I have operated my engine with the control cone removed. It did not leak. The pin moved to the opposite side of the bore... ... ...


I still don't understand why it didn't leak. Nor do I understand how it traveled that far as the reverse lever bottoms out. My guess is it POPPED out.
The location of the O ring is next to the control cone bore , not inside the plug.
When you get a leak, there will be no doubt.