Aye. They do seem to be content with leaving some of these "rough edges" in the game. I was honestly a bit surprised that they pulled the pickaxe, but I suppose it makes sense as it was about the only item in game with durability. Which did make it seem a little out of place.
But other things like having to juggle an assortment of similar chests or wires, seems to be part of the "puzzle" they want the player to have to contend with. Leaving things like this a part of the game to add inventory pressure make armor (inventory) upgrades more meaningful. So it does seem to lead to some purpose; player choice. Does the player organize their limited inventory, or upgrade armor? Or do they research the utility belt upgrade?
The pickaxe on the other hand, didn't really lead to much of a choice. It was just more of a chore.