im running a mix of stuff atm but im putting in 2 12" kenwood subs i have pioneer 6x9's focal splits going in and a pioneer hed and 4" in the dash. i run all speakers from the hu and i get great sq and i use my amp only for my sub soon to be subs, in my opion if u want 2 12s get them i like the look of 2 12s rather than just 1 but thats just me, i like running 6x9's in the shelf for a lil bit of bass, coz i have a kill switch on my amp to turn my subs off, for when i get home i dnt need my neighbourhood to know i have good equipment so it gives them more incentive to steal it. in my opinion if u like a brand go with it if you have an idea like you do run with it unless someone has the same set up in the same car no1 knows how good it will sound.
as for sounddeadening if you intend to put false walls in your boot or carpet etc, considder what i did and get underboday sounddeadener its alot cheaper and gives great results. then where ever you can see the soundeadening pannels pay a bit more to get the matting. why fork out $$$$$ if your just going to hide it behind wood or carpet.
hope i could help