The normal way to mount an amp is either horizontally with the fins upwards or vertical with the direction of the fins vertical. The second method is supposed to be more efficient.
How hot the amp gets will depend on how hard you drive it. So the size of the air gap around it will depend on this. But no less than about 1" if possible.
It's not the simplest of plans, so take it step by step and plan carefully and you won't go wrong. Just prepare for some hassle and a few cuts and bruises!
What's the other amp?
Remember, you're running 8 gauge cable. That'll allow about 450Wrms total amp power over 5 metres.
Edit. And keep asking questions!
Cheers for the advice there.
Looking at the propsed mounting place and the size of the amp, i doubt i am going to be able to get away with putting the Alpine where the bose amp sat, although i don't run a lot of volume, i may have another look at the cubby hole where you mounted yours, all i would have to do then is re reoute the speaker cables.
the Bose amp does look like it has a remote lead, looking at the loom that goes to the amp i have found 4 black sleeved wires (each one with two wires in) 8 wires (coloured in pairs with the second wire having a tracer) a red, brown and a red/white cable, the red/white being of a smaller guage that the rest of them.
I am going to test the red/white to see if it is powers up only when the stereo powers up, if so i could be in business.
The other amp hasn't arrived yet, i will have to have a look at it, the plan was to run both of the amps from the 8 guage cable, i doubt collectively i am running anywhere near 450W and the puprose of this to make a start on improving the quality of sound not to have big volume.
The main fuse is placed in the fusebox next to the battery, i like to keep things subtle and simple, i have been taking pics so i will post them up once finished