All start working now;

In this time I did created a new unix user, and as this user I entered
the PIN (which was then instantly saved apparently).

Now (even after reboot) when I use the older users even, there is no
need to re-enter PIN.

Perhaps this problem was due to moving only /home  and perhaps the new
system lacked some files or something needed to have the password
storage fully working?

Imho it would be good to track down this bug.

-- 
gnome-keyring fails to store passwords (after system upgrade done by moving 
/home)
https://bugs.launchpad.net/bugs/296736
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