Hello Fred,
Good to hear you are continuing your efforts.
... which I am confident is very close to 50 ohms DC resistance. ...
There are a few recent posts about some through terminators and how poor their performance it. I mentioned the one I had from Paternak used an axial TH device. You really want to know how the parts behave at the frequency you are using them at, not at DC.
It appears you are using the VNA standalone. I really have no idea how their firmware works as far as the calibration. If you had a way to characterize your standards, I am not sure they offer a way to enter them. My software supports setting the coefficients which in the past has caused some problems. The current release allows users to enter a value of 0 for coefficients and avoids a divide by zero (NAN) condition.
When you calibrate at the end of the cable, I assume you are using the supplied F-F barrel. Then you removed the barrel to attach the cable directly to Port2. I have never checked but understand some of the supplied barrels are very poor. It's the internet so for what it's worth. Obviously you are also changing your reference plane when you remove it.
*** See link for mention of barrels performance
https://groups.io/g/nanovna-users/topic/very_poor_thru_barrel/34447489?p=***
You're measuring from 47 ohms to 53.6 ohms going from 1 cable to 2 for me seems unexpected. Shown is the LiteVNA 64 with the same calibration as last time. Again, this is with the supplied cables. However, I have a decent thru that I leave attached to the Port1 cable.
Yellow is the with the two cables in series.
Red is with a single cable. I inserted a M-M barrel to replace the second cable. While you measure 6.6 ohms difference, I measure 0.2 ohms.
Again, nothing was torqued, old calibration, no warmup, ideal models, poor standards..... That said comparing the difference is a bit of a relative measurement, so let's make the same measurement without calibration. I get about 0.3 ohms difference. FYI, colors are swapped.
I'm sure if I took the time to make these measurements properly, things would tighten up. From what I see, if you really require better than 10%, you need to sort out the cause of the main contributors.
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Also, if you like, I could measure the LiteVNA's Port2 using my Agilent to compare results. From previous time I have compared results for passive circuits, they have been fairly close.