From my review, either arrangement will work; but, the long discharge is limited to less than 30 feet of water discharge pipe height. As far as the flow velocity in the inlet vs. the flow velocity in the outlet, when the unit is operating the flow rate entering the inlet will always equal that of the outlet.
When considering the flow of a fluid through a system it is the differential pressure across the system that determines its throughput and for a required given total operating head the total height from the source to the discharge is what is important. One limiting factor for the outlet is that is height must be less than 30 ft but there is no limit as to how much head pressure can be applied to the inlet.
For example, if a total head of 40 ft is required then the total pipng distance and, assuming equal pipe sizes, the flow friction loss is going to be same, so as long as the outlet pipe height is less than 30 feet you are free to split the 40 feet between between the inlet and outlet piping lengths it best fit the installation location.