I suspect it does, but does this also mean the dice carrying pouch with the Larian symbol is being removed?

I am disappointed the item isn't being replaced with even an in-game digital bonus (the Engraving Tool, for instance, or some CE variant of the Kickstarter potion - something you already have that would require very little effort to use as a replacement). For the price of the CE to remain the same after an item is removed suggest the item had no cost or value associated with it, which is obviously not true.