The DesktopBSD package manager is *not* a general part of BSD. It can be installed as a port, but I never have. If you have questions on how it works, you really should post it in a different group on this board ("other bsd"?).
FreeBSD uses a terminal window (or a console) when you are root (either by logging in as root or executing the "su" command), and using the commands for ports or packages.
You can try a simple "pkg_add -r linux-flashplugin", but I don't know how anything else is set up on your computer. It will connect if you are pointing to the right repository -- I just tried it. I'd suggest you install the port as was suggested above. In addition to the plugin, you will install nspluginwrapper and the linux emulation layer. Then you will have to edit a couple of files, and add a few symbolic links (maybe).
If you have specific questions on pkg_add, please do read the man page first: "man pkg_add".
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