We've only tested this in FileMaker Server v14, but if a scheduled system script is setup to run a batch file (say to transfer files to another location), then it cannot be accessed by someone in an Administrator group.
This is, in itself, understandable as there is no direct link to the folder containing the files the administrator group can access. However, what doesn't make sense is that the administrator group can create a new system script, selecting a script held within the Data\Scripts folder and save it, but then the script completely disappears from the list of schedules. The script can be seen by the overall server administrator.
Surely a schedule created by an administrator group should remain accessible by that group or the schedule should not be available to create?
Ideally we need to be able to provide access to a system script for an administrator group, so that they have the ability to transfer a backup of a file to another location (such as an online file storage service).