If I'm being honest, keeping the CPU cooler will make your choice of cases very small indeed. It's not really worth going Mini ITX unless you're going for a case that's short in depth and not too tall.
Silverstone Sugo SG05 gets my vote. I'm in the process of downsizing the spec in my sig into one of these cases but with a Core 2 Duo E8400 and the Mini ITX Zotac 9300 board you've mentioned in your original post. I'm impressed with both the motherboard and case so far and it comes with a very good 300W 80PLUS certified unit made by FSP Group (Certainly a trusted brand in my books).
The case will support anything up to 78mm in height so that's the Vendetta 2 out the window. It'll support plenty of good coolers though including the Silverstone NT06-E (run it without fan), Coolermaster GeminII (again without fan), GeminII S (with fan) or Scythe Shuriken with fan. I'm using the Scythe.
Should have a full build log on the go by tomorrow or tuesday and a full review of the Zotac ITX board by the end of the week if it's of any interest