I would prefer to say that the biggest "con" of org-mode is that, as the name suggests, it's tightly coupled to emacs. Implementations of the syntax for other environments are necessarily partial. org-babel might be the best literate programming system there is (it's up there), but I don't want emacs as my compiler.
> I'd advise not worrying about the benefits others see to either, if you are wanting to meld them. Instead, meld the parts that you like above and beyond anything else.
I'm not worried at all ^_^ but I don't mind learning from others either.
Totally fair, I think. My assertion would probably be restated best as "don't expect straight forward answers to the direct question of what is the best of each." I do specifically called out that network effects were the biggest pro of Markdown, and oddly the biggest con of org-mode. But, my main point in doing that is that I doubt most of the fans of either would list that.
Obviously some of us would, such that I could easily be wrong. Wouldn't be the first time. :D
> I'd advise not worrying about the benefits others see to either, if you are wanting to meld them. Instead, meld the parts that you like above and beyond anything else.
I'm not worried at all ^_^ but I don't mind learning from others either.