Well mine certainly got lost. Java was bugging me to update so I did, it then told me to uninstall older versions of Java as they were a security risk and then find out the next day it deleted all my scripts. My bad for not properly backing them up, but for the files to disappear from something as s...

For other people who search for this issue on Google like me, assuming it's already sorted, you need to drop and drop it from the first item selected. If you select all and the list is in the correct order but click and drag from a random one into FileBot, it will not be in order.