Terry.
YouTube served me up the 3rd part of your series. I don't believe that's here yet. >>>
Super 11 - YouTube
You need to brush up on your test bar procedures. Run out and alignment are two different things. There will always be run out on a test bar. You measured 3 tenths at the nose, then set your zero at the low point, you mention it at the 40 second mark, you even said "not sure if its the best way to do that"
The spindle axis exist's but it's invisible and buried in the centre of that test mandrel. For the purpose of checking alignment, you eliminate run out by finding the mean average of it. So you had 3 tenth's. You should set your clock to plus / minus 1.5 tenths, so zero is in the middle of the run out.
When you moved out your 300mm, you were getting greater run out. That's to be expected. You mentioned 5 -6 -7 tenths. I'm seeing 4 to 12 tenths on your clock. A difference of 8 tenths. (Video seconds 48-55).
You have 8 tenths run out, but the mean of that is 4 tenths. If you averaged out your run out at the nose, and called that zero then averaged out the run out @ 300, +/- 4. 4 tenths,that's your axis mis-alignment. That was with your indicator on top of the bar. Dr. George S probably spec'ed 0.02mm per 300. 4 tenths is 10 micron. Your at half spec across the top of the bar.
I'd also note, Its pointing up, the only way the specs allow it. It can never point down. Pointing up allows for sag and deflection on the work piece.
Your clocks must work reverse of mine. Maybe that's the way it is down under, but every Mitutoyo clock I own spins C.W as it comes on the needle. @ 1:35 you show that 5" thou horizontal run out, but then said it's toward the operator. That 5 thou is OFF the clock. The mandrel needs to come towards you, to fix that. That's the test where you have the indicator on the side of the bar. If it's truly only sitting on flats, bump it around until its true to the saddle axis. If you get excited, you could tune it up to the tailstock at the same time.
If I where you, I'd piss that single shim off, and start again, even if it meant lifting the head, giving it a good stone, clean and start again.
Regards Phil.