Firstly, all of the information Gloating Swine mentioned about the battleship Yamato should have been in this article. All I knew is that, when it was commissioned, it was ambitious, but when it was finished it was already obsolete (interestingly enough, this happens often in the gameplay of Master of Orion 2. Maybe an article should be written on that?). The article should have covered WHY it was obsolete. What it was going up against and wasn't ready for. As it was, this information was missing.
In the end, your core message is a good one. Unfortunately, your purpose is drowned in so much personal opinion that the overall message is lost and now there's too much desire to argue with your opinion rather than with your point.
Final Fantasy 4 does not have a great story, no. However, let us also consider the time it came out. While there were plenty of games coming out with pretty deep stories, a lot of them were mostly deep based on the medium they were encompassed in (take Myst for example). Final Fantasy 4 comes along, and all of a sudden it not only has a story, it has a completely cinematic experience. It opens up like a Hollywood movie with an epic score, with characters exchanging dialogue as they might in a film. Was the dialogue written expertly? No. Was the story absolutely ground breaking? Far from it. The story was cliched and read as if it were written by a middle school student.
The game was still ground breaking for what it presented. Even when you consider a lot of the Lucas Arts adventures from the early 90's and their stories, most of them were comedic. Final Fantasy 4 wasn't the first game to have a story, but it took itself seriously. While it wasn't the first one to take itself seriously, it also managed to do it cinematically. It paved the way for games to provide simple, yet still serious, cinematic experiences.
Unfortunately, as time passed, the assumption that Final Fantasy continued to be ground breaking continued. Somehow there became an assumption that JRPG's involved the deepest, greatest stories. This is, in fact, completely false.
Granted, a lot of the flaws you pointed out are actually part of a cultural barrier. Why are all the heroes teenagers whining about being heroes? Well, the Japanese wonder why our heroes are all middle-aged men that talk little or say nothing. While we think Gordon Freeman being an MIT scientist saving the world instead of the oft-criticized muscle bound soldier such as Marcus Fenix is a positive step in creativity, the Japanese look at him as just a silent doll with a generic American face. It all depends on the culture and what their goals are in narration.
As it is, I will admit that I have found new enjoyment in JRPG's in the DS. One of my favorite on the system is Contact, published by Atlus a couple of years ago and probably hard to find at this point. One of my favorite points is that the game is actually not very long, too. I'm tired of 40-80 hour games. I love how Final Fantasy 4 and Chrono Trigger are both roughly 20 hours, including the side quests. Any grinding I need to do, I can do it at my job.
The DS is a good place for JRPG's, since often enough their gameplay is more simple than the budget a console game may require (or major retail PC game). It is also a good place since it isn't always a system where you are competing for time to go from title for title. I know I can spend three months on a DS game and not care, but on console I have trouble spending two weeks before I want to move onto another title.
I also feel that Final Fantasy isn't keeping up with the generations, though they at least try to have good gameplay. Final Fantasy X, the last one I played, was fun despite a tedious story. In the end, I feel Final Fantasy moving to the DS is fitting, just as Dragon Quest shifting to the smaller platform was. I just feel the article got caught up in criticizing a game instead of embellishing the point it should.