We did an update last night and now we are experiencing a very odd issue.
When mysqld is started using "service mysqld start" or when the server boots up mysql server page in Webmin shows that only information_schema and test databases are available. If I run "killall mysqld" until no mysqld processes are left running, I can then run mysqld_safe --skip-grant-tables & and the databases show up fine. It appears that the system has disassociated the mysql databases stored in /var/lib/mysql/ and I cannot find where it is pulling the others from.
Root is the user that the mysql server is using and the password is correct.
Any help would be appreciated as I do not want to reimage and reinstall everything like I had to do last time. I would prefer to figure out how to fix this as I am tired of reinstalling after every update.