Time for part two.
The general unavailability of evolutionary stones, especially in the 3DS titles. Being forced to play minigames for stones - when they're not guaranteed prizes, either - is infuriating. It would be far better that they were outrageously priced in shops, even, because then at least I could grind money and be guaranteed an end result. I spent hours racking up Sun Stones and Moon Stones in XYORAS through Super Training. I did not enjoy it.
Some evolution items requiring BP bothers me, too. Now, some TMs and battle hold items, I can understand; it makes sense that the better battle items would be rewards in facilities designed specifically for higher-end battling. But items for evolution too? Being forced to play this rubbish over and over to rack up points is annoying. Especially considering the generally poor quality of all the optional battle facilities since the PWT.
Roaming Legendaries.
Unskippable tutorials and cutscenes. Come on, Game Freak. I know you have to cater to kids, but giving those of us who have been catching Pokemon since RBY the option to skip being told how to catch Pokemon isn't exactly difficult. And almost every modern JRPG in existence will let you either fast-forward through text and/or provide you with the ability to skip a cutscene at least after you've watched it once. This is basic stuff. Why aren't you doing it?
Paralysis and Confusion. I swear, when I hit my opponents with these, they never feel the effects of them. When I get hit with them, though? Accuracy/Evasion is another thing, too. I could Double Team until I have an army of shadow clones and the opponent would hit me every single time, but they do it once and suddenly its like my Pokemon is blindfolded. RNG in Pokemon is phenomenally broken sometimes.
People asking for outrageous things on the GTS. No, I will not give you a freakin' Level 5 Dragonite for a Rattata! I despair sometimes when I see what people are asking for on the GTS. It's always Legendaries or impossible to obtain Pokemon for even the most basic of things.
Double standards with Pokemon design bother me sometimes. So an inanimate object Pokemon is bad, but another bird is A-OK? I don't understand the concept of "creativity" that some people have when it comes to Pokemon designs. They're all based off something, so either they're all creative, or they're all plagiaristic. No Pokemon has an entirely original design. It's only the more extreme - and often in the darker corners of places like Gamefaqs - but it irks me sometimes how people act as though Pokemon should all be based off animals and anything else is somehow less original for it. Personal preference is personal preference, but they're not objectively less original. They're not. Stop.
Their inability to consistently release games worldwide annoys me, but that's a problem a lot of publishers still seem to have for some stupid reason, and if they release the next set of games after USUM simultaneously too that problem will hopefully disappear. But I was not happy to have ORAS and SM delayed for no adequately explained or explored reason. Or even an apology.