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Ok, Thanks that was very nice

That is a PCI card (a 5I20)

If the motherboard is OK, probably the easiest path
is to just get a new harddrive

Is there any chance the original HAL and INI files  are available or
can be salvaged from the hard drive?

One thing on the plots, adding the Z velocity would make analysis easier.
Both in determining the start of motion and the point where Z motion
becomes synchronized with spindle rotation

Also an actual screenshot is easier to check than a picture because its
accurate and does not have geometric distortion. (making it hard to tell if
lines are straight)