An unusual problem

Acoustic panel to absorb the bass at the windows or some means of damping the glass? 

It may help if the sub was right next to your seat. In phase and lower volume. Or headphones. 

Dynamat products are used to dampen the inside of car doors to quiet the inside of your car, improving the sound of car audio.  This may work well to dampen the glass vibrations.  

There are also quilted blankets, woven with batting available, much like the packing blankets Penske trucks issues.  These can be found with metal grommets so one can suspend them on the wall with small nails.  They can weigh 9lbs. each.

Unfortunately your problem isn’t that unusual, it’s just one of the pitfalls of sharing a common wall with your neighbor. You can try some mitigation, but realistically you’re just going to have to turn everything down in the late hours.

but realistically you’re just going to have to turn everything down in the late hours.

Not just late hours but all the time except when theyre not in.