@Scott-W-Wood I can only reply in connection with the original Omega and original Arduino Dock - I have not yet received my Omega2 and new Arduino Dock R2 - there is no documentation I can find on the latest versions that would allow me to respond definitively on them, though the photos shown on https://www.indiegogo.com/projects/omega2-5-linux-computer-with-wi-fi-made-for-iot#/ for the Arduino Dock R2 show that there are some differences and I don't know how significant these differences are.

However, from my experience with the original Omega and original Arduino Dock I can say that the USB connectivity is to the Omega in the same way as it is for the Expansion Dock and Mini Dock - see the schematics for the Arduino Dock (https://github.com/OnionIoT/Onion-Hardware/blob/master/Schematics/Omega-Arduino-Dock.pdf), Expansion Dock (https://github.com/OnionIoT/Onion-Hardware/blob/master/Schematics/Omega-Expansion-Dock.pdf) and Mini Dock (https://github.com/OnionIoT/Onion-Hardware/blob/master/Schematics/Omega-Mini-Dock.pdf)