I must admit, beyond basic research I do not fully get the point of the X-59 program
Size:
This is a demonstrator, comparable to F16/F18, a 1-Pilot aircraft.
If you scale this design up to a 100 seat airliner (comparable to the Concorde), a lot of probably non-linear effects will determine the energy of the resulting sonic boom - which then might or might not be Concorde-sized.
Sound:
Even if they achieve a 30-50% reduction in energy carried by the shock wave, it's still a shock wave. Looking at FR24, continental US, Europe and parts of Asia have already such a dense coverage of overflights ( which you mostly do not hear at all today) that even reduced shock waves every few minutes would probably be pretty hard to tolerate.
Energy consumption:
Sub-sonic air travel today is energy-intensive as hell already. Raising speeds to supersonic will raise the energy usage and CO2 emitted to fly the same route from A to B by a hefty margin.
Given the realities of air travel: Why?
Why reducing a 4 hr flight (take-off to touch-down) by 1 hr, if traveling to the airport, waiting for security screening, waiting for boarding, boarding itself, off-boarding, waiting for luggage, traveling from the airport ... already take the better part of a day anyway?