mrbstephens, if you were leaving the egg under the chicken for a few days, I could understand you being disturbed by it, especially as you are vegetarian. Or even just two days.
My chickens, unless broody, just lay their egg and leave. And actually, several chickens use the nest that way. So there is no opportunity for development of the life you're worried about, unless it's either hatched by a chicken brooding, or put in an incubator.
I understand where you're coming from about the potential for life that you don't want to eat. But if you collect the eggs daily, they shouldn't be developed. Fertilized yes, but when you remove them and put them in the refrigerator, any development should have stopped, if it ever started. I can't think of a reasonable comparison atm. I know seeds aren't going to cut it for you
So to answer your question, no, it doesn't bother me because I have stopped the development. I collect the eggs often and refrigerate them before they have an opportunity. So to me, it's just an egg.
If you can't get past that, you can always rehome the rooster. They really don't need a rooster to lay eggs, and you can be assured that if it goes against your grain, that the eggs truly aren't fertilized.