As some one who has considered this I guess I really did not want to lose any of the midgate functionality, So I built
Custom Boxes ect...
There are some other options!
Although I did not do this but certainly thought it through one place you might consider is to build them into the bed sides!
Another choice is removing the rear window and building a custom box that will sit above the midgate. this has been done on an Escalade.
You could get an AV like mine with the two front seats and remove the centre console and build a custom box to hold them.
Another oprtion which I came up with was lifting the rear seats about 2 inches making the space underneath large enough to hold big subs . You could use Aluminum tubing cut to fit then drill holes to remount the seats.
I do not know how this would effect the midgate? This is still something I may do in time!