Last test, I spent a considerable amount of time making all the gases, fruit and spices in order to get the respective Trophies.
I got the Gases trophy straight away, no problem. But once I had made all of the fruits, nothing came. Nothing happened after making all of the spices either. And the trophies weren't hiding away in my home either.
So, it's either a bug, or the fact that you have to have each fruit/spice/bubble etc. in your inventory (which I didn't) in order to get the trophy...?