I'm doing pretty much exactly what you are proposing, except: I'm running NetBSD instead.
I have a 40G laptop drive with the IDE bracket. Beware that SSDs are sometimes thicker than laptop drives. I believe that the 9.5mm drives are what fits in the case. On the 5501 you can't boot from USB, and the transfer rate to external disks is about 1/2 what it is on regular desktops. I would get the higher-end 5501 with more memory; it seems little enough more $ and you can't upgrade later. (I expect the box to be still working fine in 5-10 years, maybe much longer.) The standard case is nice.
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