Hopefully, the negative effects of extreme sound pollution on humans and animals will be considered in the trade-offs to save a few hours of flying time for the wealthy.
Boom Supersonic don't plan to use low sonic boom technologies. They just rely on ICAO and FAA lowering the noise standards to allow supersonic flight.
So "just" flying at super sonic speeds over oceans seems like it could be a disaster for marine life. The disruption to whales from noise pollution comes to mind
But not transferring from the air to the ocean, the phase transition attenuates sound a great deal.
It's things like propeller noise and sonar which are causing problems. A sonic boom over the ocean is not going to ruin any whale's day, short of perhaps alarming them when they come up for air.