Uhm. If you talk wirte about "what is the sense when I die in Klamath and respawn near BoS", then I assume you would like it more to respawn in a closer location.
I can't see any real compromise in this. You could respawn in the closest respawn point and in the same time, higher the respawn time-- which would suck, as you would lie on the ground, can't do anything.
Another possible version would be to make it depending on a skill or special stats. But really, that doesn't sound pretty good as well.
Another possibilitie would be to respawn in the closest respawn point, but stuff like crippleing, etc. stays permanent.
And as we can see, every possibilitie sounds shit because of something. :p