Gene,
I also have a home brew encoder disk and interrupter set up on a 9x20 
jet with a treadmill motor and an M60 controller.  I also have a 
similar setup on a Monarch 10EE with a 3.5 hp 350 VDC drive motor.
I was having a random problem cutting threads on both machines. The 
thread was losing its pickup occasionally and wiping the previous 
thread.  This was an intermittent problem and it took a while to find 
the culprit.
After watching a scope much more than I enjoyed I found that I was 
getting an occasional noise spike on the index interrupter which was 
of course the cause of the problem.
My fix was to decouple the Vcc on every interrupter with a 1mf cap 
and I also snaked a length of "chinese fingercuff" braid over the 
outside of all the cables (grounded at the power supply end).  I also 
ran a #6 bare copper from the motor frame to the control box chasis 
ground.  I don't know if these attempts completely removed the noise 
spikes but I do know that I haven't wiped a thread since I did it.

If I ever do another backfit I WILL use differential interrupters or 
packaged differential encoders.  There is a lot of really nasty QRM 
associated with DC motors, DC motor controllers and relays.


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