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Possible PNCCONF issue?

Yeah, there are just 3 stepgens in use there, should be 4.
Question, when using this test config and changing from one to the other Y joints, do they both move in the same direction when jogging?
One more thing, no homing with the test setup. Just jogging.

Yes. But you stil have 4 joints x-y1-y2-z that is 3 axis 
I am confused now
I have just looked through your files and it seems you have only a Y1 

With a tandem axis you need Y1 and Y2 in both HAL and INI file

That was a different set of files @Clive.   There was only to be X, Y and Z running naked......

I only see three joints in your ini file.

Joints = 3

Should there  be 4

@ Clive S  not using jog period. I'm simply loading up and mashing "HOME ALL".......
 

TEST files attached as requested.

Are you using jog?

As tandem axis has to be homed first before you can jog

Please delete

Strange, it should move both.
Let us have a look at hal and ini for this test setup...

I created a new profile and here's what happened. Both X and Z moved in the correct direction(s) as advertised above. No problem here.

When it came to the Y-Axis, only one side moved and it moved as expected in the + and - directions. So, we're moving in the right directions.
Interesting, when I swapped the stepgens in PNCCONF for the Y-Axis the issue followed. Only one side moved however it was the opposing side this time that moved.

Please see above. Only one Y-Axis moves. The other one didn't move until I re-ran PNCCONF and swapped the two Y-Axis stepgens and then 
the opposing Y-Axis ran but not the previous. So basically, only one Y-Axis would move.

It works. Thank you

I simply missed to check the option...

next,next,next... save and run, just do a jog for Y axis and see if they both move in the same direction.