We haven't fleshed out an antagonist at all, what if he isn't the kind that has mind control and such?Well, if he's actually just "some random monster in the rail station", then that changes a lot of things. I figured that the monster would have some important purpose in the story given how powerful he is, you know? You would figure that the antagonist would have something to do with an enemy that strong running loose in a rail station, instead of him acting on his own free will.
We have no idea what the ending will be like either...But even if he's not a part of the story, would it make sense to end the game with a monster that powerful still hanging around in the rail station, after peace has been restored to the land? Couldn't Link defeat it for the sake of everybody else that wants to use the rail system? I know he's not supposed to be evil, but he is dangerous.
There are a lot of dangerous things in the world, most stories don't conclude with every dangerous thing ever being eliminated.
This is probably my biggest problem with it, this is a stock plot element, the antagonist that is SO far above you at the start BUT YOU GRADUALLY GET STRONGER AND BEAT THEM IN THE END. The Boss vs Naked Snake, Cloud vs Sephiroth, X vs Vile, Samus vs SA-X, a million games have explored this idea. It's a good concept which is why it is used so frequently, but it'd be nice to do something different with that kind of enemyIt would also make sense to defeat it so we can accomplish that whole "measuring growth in strength" concept that I read about earlier. No point in measuring growth if you're never going to get to the point of surpassing the person you're comparing yourself to, unless you want to end the game knowing that the protagonist was always inferior. It doesn't have to be at the end of the game either, the event could be shaped into any part of the adventure.