jellybeard, the 12V vapochills are designed to run above the socket, that is why if you put them below you have to put in a J bend like i said.
I would say go for it, im sure you could get it to work, it wont be the easiest thing in the world, but should be doable.
The 2 big issues here i think are if the vapochill can fit into the bottom section of the case, and whether the hose will reach the socket with the vapochill in the case and the motherboard mounted upside down.
If you can do both of those then you just have the problem to getting the CC to work properly with the motherboard, which is definately surmountable.
The choice at the end of the day is yours.
G