Yes, evolution doesn’t have a will, but it’s a natural process that just goes, and speaking about “will” here is just a some euphemism for not wanting to interfere with natural process. The episode was supposed to really show the problems and dillemas that led to form the Prime Directive, and aside of what we think about Phlox decision, it does it’s job.
It would be pretty cool to see some episodes on some non Federation rase (like Cardassians or something) enslaving newly discovered civilisation.