this is kind of similar to that thing that happened a few months ago with the heavy wather separation recipe, if you alter the input fluids order, the ingredients change (this time is not the whole recipe, just the ingredients, but still bothering).
this happens when using all bob's and angels mods, but specifically bob's greenhouse (obviously), and angels petrochem. With those mods the fertilizer recipe uses ammonia, nitric acid and urea gas, and when you try to alter the order, the urea disappears, using just ammonia and nitric acid (which I think is the original recipe, the one used without angels petrochem)