Kabbalah views time and space as created conditions. Time is not measured with astronomic hours; rather, it is according to the number of spiritual states called ascents and descents. Kabbalah defines time as: The distance between cause and effect. According to the wisdom of Kabbalah everything exists within a single picture of the world. This means that time doesn’t exist.
In the books of the Kabbalah philosophy each one of the four spiritual worlds (Emanation, Creation, Formation, action) has its own relative dimension of time, different to the others. Physical space has six dimensions which limit and define it. These are: above and below, right (south) and left (north), in front (east) and behind (west).
The Kabbalah teaches about the reduction of suffering is that if one is truly living in present time. Conversely, living ones life outside of the moment invariably creates suffering. Being in the present means not being fixated in the past or concerned with the future. When one is living in the moment effectively, there is little or no space for suffering since suffering is most often generated by emotional bonds to the past and/or future.
To answer your question, after a bit of an explanation on time, the clocks may have to do with numerology, the distance between cause and effect, or the physical space, spiritual worlds, and to remind people to stay in the present.
I don’t know enough about the programming you’re talking about to give more thorough answer. There may be clocks to tell time, so alters know where to be, to rotate the system, day alters from night alters etc.