There's lots of things people are upset about in the game. The difference is that Waffles has been on about it for about, what, a year or so now...? And picked it apart far more thoroughly than SE ever intended us to?

I mean, I admit that it wasn't a wholly satisfactory ending (the storytelling in most all 2.5.x content was a bit... off for my taste), but it happened. I'd like to revisit it someday too, but I'm also fine with letting it lay as is and not derailing every topic that includes the Allagans into a long-winded examination and rant on how and why the resolution of the Crystal Tower storyline was poorly written and executed.

I don't like how the Ul'dahn Revolution arc from 2.x was resolved, but I don't launch into page-long diatribes on why it was awful. (Yes, I will talk at length about Dork Knights, but that's because it's very introspective and psychological. Hypocrite, double standard, blah blah blah. We're all hypocrites with double standards.)

While it is certainly possible to revisit the Crystal Tower and get a good ending, I won't bet on it happening. To paraphrase Peter LaFleur:
"I found that if you [want something], then you might not [get it]. But if you don't [want anything], then you are never disappointed."