62 LR Two Question 7
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Can I also prephrase like this--new born wild birds have been rapidly increasing during this period, resulting the drop of average size of beak?

You can, but I'm not confident about how helpful that will be.

I know answer choice C is the only actual option, but I'm trying to figure out what the reason for A being even a little bit distracting is (B, D, E did nothing for me). Is it because A counts on us not understanding they took a proper sample of the population (or tested the entire populations) each time they tested?

If I had to guess, I'd guess that you found (A) attractive because you added to it the invented fact that this disparity changed over the course of the study. If that additional fact were true, (A) would make some sense; our average beak size calculation shrank because we began capturing more small-beaked birds.
But unless there was a change in the difficulty of capturing the birds, (A) doesn't help explain a decrease in wild beak size over time. It would only explain why we might believe that wild birds have shorter beaks on average than do captive birds.