your peak detector must be disabled during the main bang,
may be a N-MOS to short the net Output_to5th to GND, during your transmit pulse and 1us or so after that pulse
It would be a semi automatic process, if he don't need net name the task is pretty easy, no need to do the tracing, just import on toplayer and bottom layer. I imagine the the PCB is pretty simple, in order to build it entirely with a milling machine.
Maybe you can look at Eagle, a free electronic cad software... it should be possible to import DXF, and then create Gerbers.
For sure it' doable with Altium, but it's not free, I don't know for Eagle, or other free ecad
