Hmm. Maybe it won't be a problem after all. The size of the sonic boom seems to correlate positively with the size of the wing surface. Since a track (or tube) based system wouldn't need much of a wing, it ought to have a pretty small boom.
However, I do want to point out that rifle shots are supersonic and are annoying to the neighbors, and they have no wings at all.
A friend has a rifle in 300 AAC Blackout. Subsonic ammo is far quieter than supersonic -- but you'd still want hearing protection. With a suppressor attached, it's quieter still -- you can fire it without wearing earplugs. But it's not "Hollywood quiet" - that's a movie myth.
However, I do want to point out that rifle shots are supersonic and are annoying to the neighbors, and they have no wings at all.