Looks like a good opportunity for a third party vendor to create a board using the Due's chip, but wired up for the hardcore extreme user. Rather than cloning the Due, it'd be an innovative evolution.
I actually did just that when they first announced the Due, had the PCB laid out and everything. But I used the 3U because that's what they said they were using. Then they changed to a 3X and I didn't have the energy to re do it 
I brought out ALL the signals (IIRC) with a form factor that allowed a lot of the board edge for user connectors and various modes that allowed addressing on the backplane etc. It also used the great power control ability the SAM has to shut down the board and save power. Plus it could control about 6A of external power.
Here's a render of the finished PCB
So yes, I think there is an opportunity for a bright young lad to make a "pro" version.
Rob