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If it works correctly except for that error then I would leave it.
Normally it won't boot past that point/error.
When Linux distro's started following Knoppix and building live cd's they used some tricks to get it to work. I assume some leftover issue while making this usb has caused it to leave that error. I don't use live creators myself too much anymore. I just install it to a usb just as if it were a real internal hard drive. It doesn't leave any of the live part (or shouldn't.)
Distribution: Debian Sid AMD64, Raspbian Wheezy, various VMs
By the sounds of it you are not booting from the USB stick at all. How did you set up the BIOS to boot from USB? You should be booting the machine with the USB stick in, then setting BIOS to boot from hard drive first and changing the order of hard drives so that the USB stick is the first to boot. If that isn't working then it's likely that the method you used to create the bootable USB stick didn't work properly.
I don't think this is a BIOS problem. BIOS would complain that there's no operating system, it would not make a complaint about not finding a "live file system". You have an operating system attempting to load and it is that which is complaining. Perhaps the USB you formatted was made into a boot disk but is missing the file system. I call that the root file system; however since it is intended to be a LiveUSB boot, they've coined the phrase "live file system"; it's the same though. Linux needs the kernel, and a root file system to run. I'd recommend you retry formatting that USB.