Recently I’ve moved my business server’s backups from FTP to Rsync backups which seem to be far more efficient. Unlike FTP which zips up every account individually then transfers them, rsync simply streams the files over and only updates what has changed. We were able to move our backup periods from weekly to daily just like that.
I am not sure why I didn’t try rsync in the past, it seems to be great. I may be using this for our new VPS plans as well, but that’s still a work in progress for us. This is just another step to keep all of our client’s accounts safe and secure. I’d definitely recommend you move to Rsync backups as well.