The military still use bolts! And screws! And I bet if you look really hard you can find a copper wire! Some of these things are hundreds of years old!
If it works, why change it? So long as they can find a supplier of new floppy disks for the data, it seems pretty reasonable to me (and given they're nuclear missiles, a few dozen grand per disc really doesn't seem that bad). Now if there are no more suppliers of those disks at all, and no way to read/write to them (at all), then we should start being a bit more concerned.