Thanks. I may know a lot about a little or is it a little about a lot, I forgot.
@rogmar54 - @Gene is referring to the color scheme for wiring in TIA-568 - https://en.wikipedia.org/wiki/TIA/EIA-568 as there is a solid brown and white with brown stripe, to go with the blue, orange and green paired wires. No issue on the missing brown pair or confusion with the paint.
Without a reference scale, I can't tell if the wire is the standard size for network cable or not. The Rachio unit can handle two wires (of the right size) in each port and there are two C(ommon) ports so you could split the four COM(mon) wire into two pairs. It looks like there may have been two sets of wires used to wire up the system as there are two sets of green, blue and orange wires. If the sprinkler valves are accessible via a valve box, one can check the other end of the wiring to see if the wires are paired up there too. If the plan is to place both wires in one Rachio port, I would do as Gene suggested and trim them up and get a new tight twist. If the plan is to place only one wire in a Rachio port, then one could wire nut the existing two wires together with new pig tail to go into the Rachio port.