Hmm, I was hoping for a more interesting crafting process than "hit button, wait, hey c'mere this screw needs a bit of hammering". Balancing crafting with assembly time and relying on logjams to keep the player around is kind of a roundabout way to design the process. I was hoping for a more engaging and realistic way of crafting (within the complexity limits the game can offer, of course).
For example, I really like the minecraft crafting system (especially with mods). Rather than bringing resources together and pressing a button, you actually feel like you're assembling the item. Another thing is that there's no "dead time" where you just sit and wait - the player is almost always busy.
Of course you can't just copy this system, but you can use some elements from it, like Multi-stepped crafting (raw materials -> components, components -> the item, maybe components -> higher-level-components in the middle). Maybe you already thought of that, but you mentioned it only concerning Refining.
I just hope that crafting will feel like crafting and not like factory management. Right now, it sounds more like the latter.