It is very unlikely that they will run at the same frequency since already production tolerances will cause differences.
I have no experience with the mentioned setups so I can't tell how it would affect the flow rate.
Of course both pumps must be connected to the PSU and I highly recommend to connect both pumps via USB since the aquabus only provides some basic functions which are pretty useless compared to the USB connection.
Dimensions:
Ohne grauen Filterdeckel = without gray filter-cap.
Mit Bodenplate = with base