Various issues keep arising with mysterious causes. For example:
Monitoring will definitely help. You can install hidden cameras that have motion detection and visible cameras as a deterrent. Some store images that you can view later, while others work in real time and can be connected to your network.
If your facility doesn't have wireless access points for its network, it's behind the times. Install wireless routers and/or access points, set up a secure system, and add wireless webcams.
To solve problems like jumpered e-stops and other safety devices, enclose the terminations in a junction box equipped with an alarm and, if necessary, a lock.