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I'd recommend making a backup of your current hard drive to insure you won't lose anything on your journey of moving things around
I keep ALL of my applications on my SSD (to take advantage of the speed of course). My home folder is still on my mini as well. With apps and the / folder, I'm only using around 29GB of the available 60GB on my SSD.
I do Time Machine backups to my server every few hours, and have my music, movies, etc. (currently on my FW800 1TB drive as well) backed up to it as well. That way, I have immediate access to my media files if I WANT via FireWire, but if anything was to go wrong it would all be on the server while my drive would be getting serviced.
I'd definitely say that the highlight of an SSD is 'no waiting in line'. Things just load so much faster, no lag. The best way to take advantage of all the speed is to keep all your Apps and documents you need immediately on SSD, with media and everything else you don't need
right this second kept externally and/or on a server.
Btw, I assume you all know this, but just in case. If you go with an SSD, and want any files externally, the fastest speeds come from eSata, and FireWire 800. The eSata requires hacking to install a port (no Macs have them by default), yet most Macs have FireWire 800. Take your pick and do what's necessary for you.
Personally I think Internal SSD, and FireWire 800 is the greatest combination for the Mini, and it requires only having your SSD put in. If you're a speed demon, the eSata hack may be your way to go.
I'm too much of a wuss to mess with my machine, and I'm happy with FW800
Sorry if formatting is wrong, replying via iPhone is a pain!
-Alex