I have been running in Vibrams now for quite a while (up to 8 miles at a time, at a 8:20 pace). It is almost completely painless when I don't run on roads. However, when I do, my feet hurt as though I have been standing all day or walking all day. Will this go away?
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No, it will not go away. Unless you do something about it.
Since you've been running in Vibrams for "quite a while" your feet should have adapted by now, and you should be able to run without pain in your feet.
The muscles in your feet should have gained enough strength after 4-8 weeks. The joints, connective tissue, and tendons might well take longer; ½-1 year before they've adapted fully.
So if "quite a while" means a year or more then the pain in your feet will not just go away, and you'll have to change something in order to get a different result.
What you could/should do:
Barefoot running should not hurt your feet, but if it does (for an extended period of time), then something is wrong and has to be corrected. Good luck with it.