Thanks Ian,  I did get the rack to final move via the oil filler cap and a wire hooked around the fuel rack pin.  This is the same route I used to hook it to the linkage.  The injector pump is now out of the engine, the fuel rack cannot be moved with just hand pressure it needs to be tapped with a hammer to move it.

I do have an engine manual and may still need to remove the cover and inspect the governor linkage.  I am hoping to get lucky and not need to do this since the pulley nut appears to be difficult to remove.  If I do have to remove the cover does the water pump need to be removed?

I am having a similar problems with my 1GM10.  I removed the fuel injector pump and took it to a Yanmar dealer for repair/rebuild, I ended up having to buy a new one since they told me it couldn't be fixed.  I fitted the new pump but the rack will not move easily and is currently jammed back so that I am now unable to remove it.

Any suggestions on how to get this defective part out?