Fantasy Races following the same patterns every time.
EX:
Elves are almost always oppressed in some way (and generally slaves). Also, almost always peace loving and bow + magic users.
Dwarfs are isolationists and want nothing to do with the other races. Also, this race is bad with magic, but good with technology (every time).
Humans are the strongest current empire and almost always mistreat all the other races (generally for some bland humans are naturally evil reason).
Half-Elfs are always hated more then any other being in existence.
half-dwarfs do no exist... ...ever.
Dragons are always said to be incredibly smart and wise (although they almost never show any of these characteristics) and tend to be incredibly selfish and not care about current events (and tough).
Some god-like race that looks almost exactly like one of the other races (if shown), but way more powerful and more technological advanced (till some unnamed catastrophic event left only ruins which always happen to be the most essential part of the main plot).
All other races end up being pure evil monsters with very little intelligence (goblins, orcs, etc).\
Finally, Original races do not exist due to fear that the plot could be to innovative and stick out to much (meaning that expectations might make people except it to be a good story).
What strikes me is that a story for a future game I'm trying to make tries to ever invert or deconstruct a lot of these tropes. I'm glad I'm not the only one who's tired of generic fantasy.
As for me, one thing that grinds my gears are multiple races existing in a world, yet they are all so isolated from each other. Come to think of it, the only RPG that comes from the top of my head where races don't feel like other races are the plague and sometimes live in the same town is Paper Mario, especially the Thousand Year Door. Think about that, a Mario RPG being more innovated in an area most fantasy RPGs hardly touched.
While not as often brought up, are one/two dimensional side characters that don't feel like they add to the overarching plot, or at least another character's development. Sometimes you help them in a quest related to the player progressing the story, then they join you without never saying much about themselves again. This is a compliant I often made when analyzing Chrono Trigger, where I felt the only character that really had any motivation fighting Lavos was Magus. Robo, Frog, and Ayla just hang around after you help them out. I love the game, but the writing for it is far from perfect.
Finally, the sense that you are the only one who ever fights the bad guy. A ton of RPGs seem to make normal guards, people who are trained to defend, seem really weak early on in games. How the heck do the monsters not destroy every farming village in sight if a normal human is even less than that?
Cliche, non-realistic stories.
Chances are, even the most realistic RPG Maker game is miles away from being 'realistic'.
Or do you just mean 'believable'?