Yeah, I did actually notice the colour co-ordination on the shop items; a very nice detail!
Oh, another tinyfrustration point was when I first started mass producing stuff using the autoclicker and the trees, there was a point were I had a big surplus of all the ingredients except honey. After the honey ran out, the next time it spawned it would be in an item slot instead of in the recipe slot where I had left it. I imagine this already small detail would be even less noticeable with the shift click, but since your asking!
Also just to ramble some more about what I was talking about earlier with showing the possible contents of the fruit box : when I first got a banana out of the starter box, I immediately started thinking "Oooh, I wonder what that's for?" Because of that anticipation, it was a lot more exciting/satisfying to see that banana recipe finally show up - almost as if I had solved some kinda puzzle just by thinking about it. I feel like that same effect would be leveraged by being able to see the contents of the boxes. But hey, maybe that's just the way I think!