I have absolutely no experience in NES development, but am a huge fan of homebrew games and enjoy collecting them. My hesitation of games made exclusively with NESmaker is that we get a flood of cookie cutter games that are all very similar in mechanics and style. This would really take a lot of the fun out of it as I appreciate the wide variety of mechanics and games people come up with in the homebrew community.
I understand that almost all homebrew developers are using some sort of tools to help in coding and creation of their game. I don't really understand why using NESmaker is considered "worse" than using any other tool that is out there.
If a game was made exclusively with NESmaker with minimal to no modification to the coding, I'd want to know that before buying it. If a game was made using NESmaker as one tool (among other tools and coding), then I don't really care, and don't think that should be looked down upon in my opinion.