I don't think this is intentional to cut cost. I simply think that the chip was primarily made for devices with one port (iPhone, iPad) and this is a bit of an afterthought.
I wouldn't be surprised to see a future product with 2x USB 3.0 10 Gbps with DisplayPort support on the next generation, A19 Pro or A20 Pro maybe, if the product has enough success.
This is going to be a primary complaint people have (even if it's not terribly important) - hopefully they have some circuitry that warns you if you're plugging something into the wrong port (e.g. a USB 3 device into USB 2 at slow speeds).