Font Book does not Install all fonts
I'll bet you have a font corruption problem.


Split the uninstalled fonts into two groups.
Import the first group.
Check to see if they imported successfully.

If yes, you know the problem is in the second group, so go to step #1.
If no, the second group might be okay, so try importing that.



And so on.

You should be able to narrow down the problem without having to import each font one at a time. But my guess is that one or more of your fonts is corrupted.