The MSI board is way better value. It has PCI-E for upgrading a dedicated video card and SATA 6Gb.
Unless you're using it for something other than a HTPC, there's no way you're going to notice the 6Gb/s over 3Gb/s.
Dedicated graphics requires a significantly larger form factor (or a riser card which is not super cheap). If you want better graphics in a small package, you might as well look at one of the regular AMD Fusion APUs and a separate mini ITX board.