So I would say you are looking for someone with a certain amount of knowledge or a glitch in the system.
What you have to remember is that computer systems used by Governments are not chosen for the best workings/equipment but generally chosen on price by some bureaucrat who doesn't understand that what they approve may not be the right equipment/software combination for the required job.
Without knowing a lot more about the hardware/software combinations involved I would not like to even hazard a guess as to what is going on. But if really pushed I would tend to look toward the automated backup system in place.
On the privacy front however there is not an issue as any work that is performed on an employers computer system is their property and they have every right to look at everything. It was not all that long ago that Government workers where terminated for having unsatisfactory data on their workstations or sending inappropriate e-mails to others.
If there was a believed privacy right implied it would then be possible to leak sensitive Government data to outside sources and the culprit could not be caught as the Superiors would not have the right to even look to see what was being done with their computer systems. Or for that matter if an individual was actually doing their work. With the files being moved around it is in your best interests to not worry about this as you are protected if anything happens as you can always claim that whatever got moved somehow and you where not responsible. However if you are the Sys Admin it is a different story but again you can only administer the hardware/software you are given and can not be expected to write code for any flaws in the supplied system.
Col