what files should I exclude/add/copy mysql dbs (without mysqldump)
You cannot exclude the ib_logfile* files, if those aren't present, your data will be at best damaged, unless you are running with innodb_fast_shutdown=0 - which can make stopping the service take a very long time.

The only things that are safe to omit are the relay logs and binary logs. You will have to check what the names of those are set to in your config file.