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If you have an accelerated server(Boosted) get the lo3accel.cfg.If you dont get the plain lo3.cfg.If you switch off they wont be compatible with each other.
You go into your servers FTP through Internet Explorer or an FTP client such as Smart FTP and once your connected to your servers FTP all you do is put it in the main Directory which is when you first connect to it.
Once it is in correctly you may use it by executing this command if you have admin mod or just rcon admin_rcon exec lo3accel.cfg or for first imput your rcon password in your easy setup page on the control panel and get the password then in console in game put the rcon_password (Whatever it is) then execute this command rcon exec lo3accel.cfg.