Since you're using a mini-ITX board, why not go for a mini-ITX cases with room for your three harddrives?
Lian Li PC-Q08
Lian LI PC-Q18
Fractal Design Node 304
Cooler Master Elite 120 Advanced
Bitfenix Prodigy (though this case is a bit big for a mini-ITX cases.)
If you don't want an ITX case but prefer a mATX case than also consider the Silverstone Precision PS07. It's the same as the Temjin TJ08-E, only cheaper, has two 120 mm fans instead of the 180 mm fan, and the thermal performance is worse. But that won't be a problem for you setup.
Lian Li are a bit expensive.
The node 304 looks good but is not yet available but i should wait to read some review about it!
For the last two, i have some doubt about their quiet capabilities...