You should be able to restart both of them with one systemctl, just put a space between the services. E.g. systemctl restart thingd@01 thingd@02
I usually stop all major services before cloning an instance after it has been removed from a load balanced pool. I use the following:
# stop php-fpm, MariaDB, nginx and postfix
systemctl stop php-fpm nginx postfix mariadb
# check status after they have been stopped
systemctl status php-fpm nginx postfix mariadb
# start all of them again
systemctl start php-fpm nginx postfix mariadb