Invest in a temp gun, there are good ones for cheap on Amazon, mine was 15$.
You probably dont need a thermometer on the cool end. Just on the hot side under the substrate which you can secure in place with suction cups or hot glue or something non toxic and nothing sticky. Or get a wireless one.
The UTH thermostat probe shouldn't be visible, it should be taped onto the heat pad under the enclosure.
You could also hide the probes by hanging plants where they come into the enclosure.
I personally dont care about visible wires as long as it works, its safe and my animal is comfortable. Keep playing around with it you'll figure it out.