I would avoid handling unless you need to quickly remove him and put him another container while you clean his tank.
Wait until he has three meals on consecutive tries in him before you can start gentle handling sessions.
Yeah, you won't miss the poop, but with Cypress Mulch, might miss the pee. However, pee generally comes with white chalky poop like stuff called Urates. The poop smells pretty bad, especially while they are eating mice. It's actually less unpleasant on rats.
If you are worried about him digesting cypress mulch, either use a different substrate, or offer the food over a paper plate. I am not an expert on cypress mulch, but snakes have a pretty strong digestive tract. I'll let someone else chime in on that, but I wouldn't worry too much.
For cleanliness, ease of care, and to avoid issues like digesting substrate, I use printless newspaper. I have enclosed PVC tanks so humidity stays perfect even with the paper substrate.