I've never been happy with the way SE implements stuff. From my perspective, they seem to take a decent/good idea and just butcher it with needless complexity and grind. The negative of the patches often seems to overwhelm the other good stuff that they add. Some of the things that bothered me from patches:

Glamor Prisms - For something that should have been a simple drag-and-drop extra tab we instead get over 30 new items centered around glamoring. I shouldn't need to make a freaking shopping list to change my character's appearance. Once I finally get my HA Boots, I plan to change my overall outfit, but that is going to be inventory management hell as I try to overwrite glamors with items that have already been glamored.

Housing Round 1 - There was certainly a good deal of sticker shock on the prices of houses. This was back when gil was much harder to make and small houses were smaller than an inn room. At the time, I was only netting 200-500 gil/week. Needless to say, the millions the small house cost seemed like quite a rip-off.

Housing Round 2 - What we expected and what we got were two completely different things. There was no word on any changes or that what we expected was off.

Frontlines - Locking your team to your grand company was a terrible idea. Most people chose these fairly arbitrarily, or based on whatever their starting town was. This means friends may not be able to join together unless one of them changes GCs.

Atma - becuz grinding level 5 FATES is fun yo! I'm sure everyone who has gone through that remembers the dissapointment of finishing the atma slog only to realize that all they got was a different color weapon, and a new grind, although slightly more interesting. Even then as if the atma grind didn't make us do enough, the books have FATES that often take hours to appear. Who at SE thinks alt-tabbing with the zone map pulled up is good game-play?

Hunts - As a raider, I think these were the absolute worst thing to happen to the game, even ignoring that, they were implemented in the worst possible way. All SE had to do was look at how bad FATES got when atma first released to be able to predict the zerging that would have happened. They have also killed every single other aspect of the game. I used to join random PF learning groups to help people clear stuff they were stuck on, but those rarely happen anymore (Titan X was my favorite).