just wondering why that line is out-commented

Thanks for looking into it. That could be the problem, as there is no bind-address:

#---------------------------------------------------------------------------------------------------------------------------------

# Example MariaDB config file for large systems.
#
# This is for a large system with memory = 512M where the system runs mainly
# MariaDB.
#
# MariaDB programs look for option files in a set of
# locations which depend on the deployment platform.
# You can copy this option file to one of those
# locations. For information about these locations, do:
# 'my_print_defaults --help' and see what is printed under
# Default options are read from the following files in the given order:
# More information at: http://dev.mysql.com/doc/mysql/en/option-files.html
#
# In this file, you can use all long options that a program supports.
# If you want to know which options a program supports, run the program
# with the "--help" option.

# The following options will be passed to all MariaDB clients
[client]
#password       = your_password
port            = 3306
socket          = /tmp/mysql.sock

/usr/local/etc/mysql/my.cnf: unmodified: line 1
# Example MariaDB config file for large systems.
#
# This is for a large system with memory = 512M where the system runs mainly
# MariaDB.
#
# MariaDB programs look for option files in a set of
# locations which depend on the deployment platform.
# You can copy this option file to one of those
# locations. For information about these locations, do:
# 'my_print_defaults --help' and see what is printed under
# Default options are read from the following files in the given order:
# More information at: http://dev.mysql.com/doc/mysql/en/option-files.html
#
# In this file, you can use all long options that a program supports.
# If you want to know which options a program supports, run the program
# with the "--help" option.

# The following options will be passed to all MariaDB clients
[client]
#password       = your_password
port            = 3306
socket          = /tmp/mysql.sock

# Here follows entries for some specific programs

# The MariaDB server
[mysqld]
innodb_file_per_table
port            = 3306
socket          = /tmp/mysql.sock
skip-external-locking
key_buffer_size = 256M
max_allowed_packet = 1M
table_open_cache = 256
sort_buffer_size = 1M
read_buffer_size = 1M
read_rnd_buffer_size = 4M
myisam_sort_buffer_size = 64M
thread_cache_size = 8
query_cache_size= 16M
# Try number of CPU's*2 for thread_concurrency
thread_concurrency = 8

# Point the following paths to different dedicated disks
#tmpdir         = /tmp/

# Don't listen on a TCP/IP port at all. This can be a security enhancement,
# if all processes that need to connect to mysqld run on the same host.
# All interaction with mysqld must be made via Unix sockets or named pipes.
# Note that using this option without enabling named pipes on Windows
# (via the "enable-named-pipe" option) will render mysqld useless!
#
#skip-networking

# Replication Master Server (default)
# binary logging is required for replication
log-bin=mysql-bin

# binary logging format - mixed recommended
binlog_format=mixed

# required unique id between 1 and 2^32 - 1
# defaults to 1 if master-host is not set
# but will not function as a master if omitted
server-id       = 1

# Replication Slave (comment out master section to use this)
#
# To configure this host as a replication slave, you can choose between
# two methods :
#
# 1) Use the CHANGE MASTER TO command (fully described in our manual) -
#    the syntax is:
#
#    CHANGE MASTER TO MASTER_HOST=<host>, MASTER_PORT=<port>,
#    MASTER_USER=<user>, MASTER_PASSWORD=<password> ;
#
#    where you replace <host>, <user>, <password> by quoted strings and
#    <port> by the master's port number (3306 by default).
#
#    Example:
#
#    CHANGE MASTER TO MASTER_HOST='125.564.12.1', MASTER_PORT=3306,
#    MASTER_USER='joe', MASTER_PASSWORD='secret';
#
# OR
#
# 2) Set the variables below. However, in case you choose this method, then
#    start replication for the first time (even unsuccessfully, for example
#    if you mistyped the password in master-password and the slave fails to
#    connect), the slave will create a master.info file, and any later
#    change in this file to the variables' values below will be ignored and
#    overridden by the content of the master.info file, unless you shutdown
#    the slave server, delete master.info and restart the slaver server.
#    For that reason, you may want to leave the lines below untouched
#    (commented) and instead use CHANGE MASTER TO (see above)
#
# required unique id between 2 and 2^32 - 1
# Set .._log_file_size to 25 % of buffer pool size
#innodb_log_file_size = 64M
#innodb_log_buffer_size = 8M
#innodb_flush_log_at_trx_commit = 1
#innodb_lock_wait_timeout = 50

[mysqldump]
quick
max_allowed_packet = 16M

[mysql]
no-auto-rehash
# Remove the next comment character if you are not familiar with SQL
#safe-updates

[myisamchk]
key_buffer_size = 128M
sort_buffer_size = 128M
read_buffer = 2M
write_buffer = 2M

[mysqlhotcopy]
interactive-timeout

#---------------------------------------------------------------------------------------------------------------------------------

installation failed again:

#--------------------------------------------------------------------------------------------
[ INFO ] Configure MariaDB database server.
+ < DEBUG > Initialize MySQL server.
+ < DEBUG > Stop MySQL service before initializing database or updating my.cnf.
+ < DEBUG > Enable mysql service when system start up.
mysql_enable:  -> YES
mysql_optfile:  -> /usr/local/etc/mysql/my.cnf
+ < DEBUG > Copy sample MySQL config file: /usr/local/share/mysql/my-large.cnf -> /usr/local/etc/mysql/my.cnf.
+ < DEBUG > Disable 'skip-networking' in my.cnf.
+ < DEBUG > Set max_connections to 1024.
+ < DEBUG > Enable 'innodb_file_per_table' in my.cnf.
+ < DEBUG > Enable 'skip_grant_tables' option, so that we can reset password.
+ < DEBUG > Enable 'bind-address = 172.21.13.2' in my.cnf.
+ < DEBUG > Restart service: mysql-server.
mysql not running? (check /var/db/mysql/mail02.xxx.yyy.pid).
180601 12:17:35 [Warning] 'THREAD_CONCURRENCY' is deprecated and will be removed in a future release.
180601 12:17:35 [Note] /usr/local/libexec/mysqld (mysqld 5.5.60-MariaDB) starting as process 32669 ...
180601 12:17:35 [Warning] 'THREAD_CONCURRENCY' is deprecated and will be removed in a future release.
180601 12:17:35 [Note] /usr/local/libexec/mysqld (mysqld 5.5.60-MariaDB) starting as process 32671 ...
+ < DEBUG > Sleep 10 seconds for MySQL daemon initialization ...
Database
information_schema
mysql
performance_schema
test
+ < DEBUG > Setting password for MySQL root user: root.
Password    char(41)    NO           
mysqladmin:
You cannot use 'password' command as mysqld runs
with grant tables disabled (was started with --skip-grant-tables).
Use: "mysqladmin flush-privileges password '*'" instead
+ < DEBUG > Generate defauts file for MySQL client option --defaults-file: /root/.my.cnf.
+ < DEBUG > Delete anonymous database user.
+ < DEBUG > Generate sample SQL templates.
+ < DEBUG > Create database: vmail.
+ < DEBUG > Initialize database: vmail.
+ < DEBUG > Add first domain and postmaster@ user.
[ INFO ] Setup daily cron job to backup SQL databases with /var/vmail/backup/backup_mysql.sh
#--------------------------------------------------------------------------------------------

Errors in sogo.log:
#--------------------------------------------------------------------------------------------
[...]
Jun 01 06:27:16 sogod [37198]: <0x0x80d728a10[WOWatchDog]> Terminating with SIGINT or SIGTERM
Jun 01 06:27:16 sogod [37198]: <0x0x80d8c65b0[WOWatchDogChild]> child 37204 exited
Jun 01 06:27:16 sogod [37198]: <0x0x80d728a10[WOWatchDog]> Terminating with SIGINT or SIGTERM
Jun 01 06:27:16 sogod [37198]: <0x0x80d8c6430[WOWatchDogChild]> child 37208 exited
Jun 01 06:27:16 sogod [37198]: <0x0x80d8c64f0[WOWatchDogChild]> child 37206 exited
Jun 01 06:27:16 sogod [37198]: <0x0x80d8c6730[WOWatchDogChild]> child 37205 exited
Jun 01 06:27:16 sogod [37198]: <0x0x80d8c66d0[WOWatchDogChild]> child 37203 exited
Jun 01 06:27:16 sogod [37198]: <0x0x80d8c67f0[WOWatchDogChild]> child 37202 exited
Jun 01 06:27:16 sogod [37198]: <0x0x80d8c6850[WOWatchDogChild]> child 37201 exited
Jun 01 06:27:16 sogod [37198]: <0x0x80d8c6910[WOWatchDogChild]> child 37200 exited
Jun 01 06:27:16 sogod [37198]: <0x0x80d8c6670[WOWatchDogChild]> child 37199 exited
Jun 01 06:27:17 sogod [37198]: <0x0x80d728a10[WOWatchDog]> Terminating with SIGINT or SIGTERM
Jun 01 06:27:17 sogod [37198]: <0x0x80d8c6490[WOWatchDogChild]> child 37207 exited
Jun 01 06:27:17 sogod [37198]: <0x0x80d728a10[WOWatchDog]> all children exited. We now terminate.
Jun 01 06:27:17 sogod [37462]: version 3.2.10 (build root@mail02.xxx.yyy 201806011214) -- starting
Jun 01 06:27:17 sogod [37462]: vmem size check enabled: shutting down app when vmem > 500 MB. Currently at 0 MB
Jun 01 06:27:17 sogod [37462]: <0x0x80d7cac10[SOGoProductLoader]> SOGo products loaded from '/usr/local/GNUstep/Local/Library/SOGo':
Jun 01 06:27:17 sogod [37462]: <0x0x80d7cac10[SOGoProductLoader]>   CommonUI.SOGo, AdministrationUI.SOGo, SchedulerUI.SOGo, Appointments.SOGo, PreferencesUI.SOGo, Contacts.SOGo, MailerUI.SOGo, MainUI.SOGo, ActiveSync.SOGo, ContactsUI.SOGo, MailPartViewers.SOGo, Mailer.SOGo
Jun 01 06:27:17 sogod [37462]: All products loaded - current memory usage at 0 MB
Jun 01 06:27:17 sogod [37462]: <0x0x80d728a10[WOWatchDog]> listening on 172.21.13.2:20000
Jun 01 06:27:17 sogod [37462]: <0x0x80d728a10[WOWatchDog]> watchdog process pid: 37462
Jun 01 06:27:17 sogod [37462]: <0x0x8030fcb40[WOWatchDogChild]> watchdog request timeout set to 61 minutes
Jun 01 06:27:17 sogod [37462]: <0x0x80d728a10[WOWatchDog]> preparing 10 children
Jun 01 06:27:17 sogod [37462]: <0x0x80d728a10[WOWatchDog]> child spawned with pid 37463
Jun 01 06:27:17 sogod [37462]: <0x0x80d728a10[WOWatchDog]> child spawned with pid 37464
Jun 01 06:27:17 sogod [37462]: <0x0x80d728a10[WOWatchDog]> child spawned with pid 37465
Jun 01 06:27:17 sogod [37462]: <0x0x80d728a10[WOWatchDog]> child spawned with pid 37466
Jun 01 06:27:17 sogod [37462]: <0x0x80d728a10[WOWatchDog]> child spawned with pid 37467
Jun 01 06:27:17 sogod [37462]: <0x0x80d728a10[WOWatchDog]> child spawned with pid 37468
Jun 01 06:27:17 sogod [37462]: <0x0x80d728a10[WOWatchDog]> child spawned with pid 37469
Jun 01 06:27:17 sogod [37462]: <0x0x80d728a10[WOWatchDog]> child spawned with pid 37470
Jun 01 06:27:17 sogod [37462]: <0x0x80d728a10[WOWatchDog]> child spawned with pid 37471
Jun 01 06:27:17 sogod [37462]: <0x0x80d728a10[WOWatchDog]> child spawned with pid 37472
2018-06-01 06:27:17.740 sogod[37464:100769] ERROR: could not open MySQL4 connection to database 'sogo': Unknown database 'sogo'
Jun 01 06:27:17 sogod [37464]: [ERROR] <0x0x80d8d5d10[GCSChannelManager]> could not open channel <MySQL4Channel[0x0x80d8c8590] connection=0x(null)> for mysql://172.21.13.2/sogo/sogo_user_profile
Jun 01 06:27:17 sogod [37464]: [WARN] <0x0x80d8d5d10[GCSChannelManager]>   will prevent opening of this channel 5 seconds after 2018-06-01 06:27:17 -0400
2018-06-01 06:27:17.743 sogod[37466:100759] ERROR: could not open MySQL4 connection to database 'sogo': Unknown database 'sogo'
2018-06-01 06:27:17.743 sogod[37463:100801] ERROR: could not open MySQL4 connection to database 'sogo': Unknown database 'sogo'
Jun 01 06:27:17 sogod [37466]: [ERROR] <0x0x80d8d5d10[GCSChannelManager]> could not open channel <MySQL4Channel[0x0x80d8c8590] connection=0x(null)> for mysql://172.21.13.2/sogo/sogo_user_profile
Jun 01 06:27:17 sogod [37466]: [WARN] <0x0x80d8d5d10[GCSChannelManager]>   will prevent opening of this channel 5 seconds after 2018-06-01 06:27:17 -0400Jun 01 06:27:17 sogod [37463]: [ERROR] <0x0x80d8d5d10[GCSChannelManager]> could not open channel <MySQL4Channel[0x0x80d8c8590] connection=0x(null)> for mysql://172.21.13.2/sogo/sogo_user_profile
[...]
#--------------------------------------------------------------------------------------------

Login in MySQL server works with the seleted password, but there are no databases besides the default one:

#--------------------------------------------------------------------------------------------
MariaDB [(none)]> show databases;
+--------------------+
| Database           |
+--------------------+
| information_schema |
| mysql              |
| performance_schema |
| test               |
+--------------------+
4 rows in set (0.01 sec)
#--------------------------------------------------------------------------------------------

did you already had a chance to test it?

Hi @arneboeses,

Is it possible for you to give me a sandbox of FreeBSD Jail for testing? it will be much easier for me to start testing this issue.

sorry for annoying, but did you had a chance to test already?

Best,
Arne