Just fishing Dave, it's the only thing the two batteries have in common. I guess I can prove the idea by adding a temporary link wire in before removing the fitted link.
Just had a thought on your battery imbalance and the battery link which I had not considered before ....
When you are measuring your battery voltages to compare the two, are you measuring at the battery terminals of each battery? or are you measuring from the same mid-point location (like the BMV mid-point connection would do)?
If you
did have a poor battery link and you used a common mid-point for measuring at one of the terminals, then you would get an apparent inbalance between the two even though they may be actually exactly the same. If you have the common point, it would be interesting to move the midpoint connection to the other side of the link and see if the battery voltage difference is reversed?
A poor link would not affect how the two batteries work together but could affect the reported measurements - and a battery balancer could actually by attempting to balance an already balanced battery take them out of balance! (I guess ideally you need the midpoint connection to be the midpoint in the link cable. maybe cut a slit in the insulation and solder a fly-wire to tap onto?)