Always having Rocket Boots<Spectre Boots<Lightning Boots<Frostspark Boots as an accessory when available
Guilty, lol.
Always having Wings as an accessory when available
I can't imagine anyone not using Wings or Hoverboard, but I'm sure there's some out there.
Having Gel and Stars at the bottom right of my inventory
I do something very similar, not always at the bottom right corner, but bottom row in general. Magic Mirror is always the bottom left slot so I know exactly where it is and can click it fast if needs-be.
Hoarding everything I collect in loads of chests at base (even if I would never use the item for any reason) (Getting a little better at organization luckily)
Very guilty LOL.
Farming EoC and EoW/BoC then farming Plantera and Fishron when able even when I've gotten every item from both of them.
I pop em if I have the items to do so. Though Golem, what I've been doing, is building wood platforms high enough so that the bottom of golem's room is off-screen whenever possible. This means lihzarhds (and mimics! usually 1-2 per golem fight) will spawn down there while I'm fighting Golem and oftentimes power cells will drop while I'm fighting golem, which allows me to farm him near-infinitely. If I see Plantera Bulbs, I'll pop those too if I happen to be derping around in the jungle (usually while on the way over to a golem farm session).
So partially guilty, only with Golem instead of the other bosses.
Keeping NPC homes separate from my base
I always make a compact house, all the NPC quarters are the same size and in a neat little row, crafting room right next to it and then a greenhouse room right next to that, lol. Not very original or flashy, but it gets the job done.
Sword in Slot 1, Spear or Sickle in slot 2, Flail in slot 3 of top row
Mine are more like...
1). Main Weapon (usually a sword, or Scourge/Flairon)
2). Pickaxe
3). Axe/Hamaxe (Pwnhammer once I get the Pickaxe Axe or Picksaw)
4). Ranged Weapon or Nimbus Rod
5). Rope (it's a habit, I even leave it there after I have wings)
6). Some sort of Solid Block (I swap em out depending on what I'm actually doing or where I'm doing it)
7). Utility Weapon (Space Gun/Laser Gun/Heat Ray, Nimbus Rod if I have a ranged weapon, etc).
8). This can vary depending on what other decent weapons I have on me. Sometimes a Water Bolt, other times a bow, whatever.
9). Wood Platforms
0). Torch
Making hellivators 3 blocks wide
I always make mine 2 wide; rope on the left torches on the right.
Doing Melee on pretty much every playthrough
Guilty!
I always stack Defense; hardly anything can touch you if you've got 92-94 Defense (Warding + Beetle Armor + Ankh Shield).
There's also some habits that carry over from Minecraft like having building symmetry, making tunnels 3-4 block wides
Never played minecraft, but oftentimes while I'm tunnelling, I just turn auto-dig on and that results in a perfect 3 block high horizontal tunnel or 2 block wide vertical tunnel.