In my field (ecology/environmental science) it would have obvious practical advantages, as places have a lot of unique species and dynamics.
If the concepts that form the core of your research are relevant only to the unique species/dynamics of one area, we're not going to interview you, even if that one area is three miles away.
So, if a hypothetical candidate from S. California, or Atlanta, applied to a job in Maine, would they be at a minor disadvantage compared to a similar candidate from Massachusetts or Vermont, all else being equal? If this exists, how strong is it? What are the mechanisms?
This is an issue that sometimes comes up in searches, and, ceteris paribus, I think there is a slight advantage. As you suggest, one mechanism that is peculiar to ecology/environment is in field sites. But it is not just a question of whether you're familiar with local habitats and can launch a local research program without having to do a bunch of unpublishable baseline observational work, but also a question of potential collaborations (potential collaborations is a major consideration in our deliberations). Most of our field-oriented biologists have some kind of local work, and the more people working in the same area, the more opportunities there are for going after the huge grants. That said, most of our field-oriented biologists also have field sites far away -- so if you work far away, but in the same place one or more of us do, again you have a slight advantage based on potential collaborations. But since so many of us work in places that are far away, we also know that can work out just fine, and we are experienced in working our university's system so that if you need to spend three months on the other side of the world, you can.
However, whatever geographic (dis)advantage there is, it is much, much smaller than in USGS or EPA. All of the positions I ever considered applying for in those agencies emphasized knowledge of local habitats/biota as an important criterion of evaluation.
Like others said, you have no control over your geographic history. But you can make us see collaboration opportunities, regardless of where you work. If you do that better than someone with local ties, you win.
-Cu