After seeing trays for Black Plague, I made some custom storage for my Zombicide S2 box with a 3D printer that are made to fit beside the game tiles :
The 4 parts are made to hold 1) objectives and doors;
2) cell doors, switches and XP markers;
3) noise and spawn token;
and finally 4) barbwire, leader, main entry door and the 6 dices :
I added some text or picture inside each tray to help sorting parts.
On those picture, I've printed my models with 0.2mm Z resolution (and I think it will be OK with more for faster prints).
Feel free to use my model to sort your tokens and to show the result !