Proper shut down is pretty simple, fortunately - go to the website and login. Next to each of the drives click the
eject icon. It will ask you if you want to eject: say yes. This safely removes your drives. Once you've done that you can power down the Pogoplug by simply unplugging it. Let it sit for a few seconds, then plug it back in to power it on. Let the lights turn green, and you're good to start plugging other things into it.
to answer your other question once you've safely removed your drive, and restarted the Pogoplug, plug in the hub, then the drives - they should all show up in a minute or two (FAT32 takes a little longer, and they won't show up in any specific order).
Hope that helps!

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