I used freebsd-update to upgrade several 11.3-p5 systems to 12.1-p1. The etc update process added the ntpd/ntpd user/group. It showed the line changes in the plaintext passwd/group files, but the process appears to omit the pwd_mkdb step.

After the upgrade, ntpd fails to start:

# service ntpd start
Starting ntpd.
su: unknown login: ntpd
/etc/rc.d/ntpd: WARNING: failed to start ntpd

Running the usual pwd_mkdb command fixes the issue.
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