When comparing MultiBootUSB vs UNetbootin, the Slant community recommends UNetbootin for most people. In the question“What is the best software for creating Live USB (from ISO files)?” UNetbootin is ranked 11th while MultiBootUSB is ranked 12th. The most important reason people chose UNetbootin is:
Although you can override this setting by selecting any ISO file of your choice, UNetbootin offers a simple interface in which you can choose to automatically download almost any mainstream operating system. This can save users the hassle of browsing through web pages in search of a download.
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Pros
Pro Allows "persistance" for select ISO's
You can create a "persistance" file of up to 4GB (depending on USB stick space) for many current live CD ISO's, which means you can live boot, install a few things, save a few docs, then shutdown & move to another PC with the same files intact (tested by installing Minecraft :)).
Pro Multiplatform
Windows, Debian package, RPM & source available along with a number of unofficial builds (Arch, Slackware, ROSA, Gentoo).
Pro Supports most common distros for download
Although you can override this setting by selecting any ISO file of your choice, UNetbootin offers a simple interface in which you can choose to automatically download almost any mainstream operating system. This can save users the hassle of browsing through web pages in search of a download.
Pro Cross-platform
The fact that UNetbootin is cross platform means it can be used on any computer one has lying around, to create a bootable USB stick from a proper ISO file. It also makes it more viable as a tool since it can be recommended to anyone without having to worry about what operating system they are running.
Pro Automatically detects USB flash drives
UNetbootin automatically detects all the USB drives in the computer, this helps the interface be much more fluid, and protects inexperienced users from accidentally corrupting their hard drive.
Cons
Con There's a chance it will destroy your USB
Not only is the performance of the software subpar, there is a high likelihood that it will corrupt your USB in the process.
Con Uninstaller Not Supported
Con Have issues on autorun.inf when install more than one distributions
Con Might not work sometimes
For example UNetbootin has some troubles with the Hiren's Boot CD ISO file.