I designed an inlay to store Ark Novas sleeved cards, while still using the original inlay and storage for all the tiles. The card sleeves I am using are 63.5 mm x 88 mm standard sleeves with outer dimensions of 66mm x 91mm.
The two double trays fit all zoo cards, including the cards from the Waterworld expansion.
The two smaller, single trays are designed to fit the action, conservation and final scoring cards.
Additionally I added modified versions of paprika_dash's RftG dice boxes, that I use to fit all the player materials as well as the bonus tokens. These boxes use a simple friction lid. To get the same see-through box lids, change the top and bottom shell layers to 0 and choose an infill pattern that you like (I used hex in this case). Those settings are already included in my print profile.
For the rest of the components I still use the original plastic boxes that came with the game.