Just came back to the game today for the event to see how things are progressing. In doing so, I was testing gamepad/controller, and I noticed that my skills aren’t lining up w/ the button presses. Pretty much every button prioritizes warpath even though it’s not slotted to that button. Anyone ran into this?
Have you checked your steam gamepad settings? Before they implemented gamepad controls I was working off a custom gamepad setup using steams big picture overlay. After gamepad mode got implemented I had to wipe the keybindings and just use a blank gamepad for my controller configuration or I would get weird input issues.
If you use any other type of gamepad mapper like Joy to Key of DS4 etc… you may want to make sure those mappers are blank so they don’t conflict with anything. If you use a playstation controller like me you may also want to use a controller mapper that sims an Xbox controller like DS4. I haven’t had to sim my ps4 controller for Last Epoch, but sometimes simming an Xbox controller helps with gamepad conflicts.
I’ve checked it out, and tried what you suggested, but the issue remains. I can’t make sense of it, but I’ve isolated the problem. Anytime I push “B” on the controller it uses that skill but it also seems to be pushing the “Y” button input at the same time. Like “B” is pressing both buttons. I checked the keybindings, and there’s nothing that indicates this should be happening. Anyone else experienced this issue?
One correction: When I push B on the controller it also pushes X - not Y.
What type of controller are you using? If its a PS3 , PS4, PS5 or any type of Xbox controller I can try to sim it and see if it gives me the same issues. I could also give you a blank controller config that works with steam’s big picture controller mapping. Have you checked your in-game key binds? Its possible something got tossed around in there.
If none of that works you can also just use steams controller mapper to sim a keyboard. You won’t get the fancy UI Wheel but you can make all of the buttons you need to actually play the game work. You’d be stuck with click to move though.
XBOX Series X controller. I’ve checked the ingame keybinds. Funny enough, they disappear once I leave the options and come back. I’ve seen other people complain about the same bug. I’ve disabled steam input to keep any profiles from overriding the game’s natural layout. I’m all out of ideas. 
I tried different configs emulating an Xbox controller and wasn’t running into any issues with my input. Mapping controllers for keyboard functionality looks like it is off the table as I couldn’t find a way to turn off Last Epoch’s controller detection.
This is the blank layout that LE’s controller mapping uses:
steam://controllerconfig/899770/2947444525
You probably already have it but importing the template to see if my blank layout responds differently from yours couldn’t hurt. You would have to turn on steam input again for this to work though.
The only other things I can think of at the moment are looking to see if your Xbox controller drivers are up to date and making sure steam is being run in administrator mode.
You can access your Xbox one controller by heading to the Device Manager, finding your Xbox controller, right clicking it and hitting update driver. Microsoft usually installs this this automatically but it never hurts to check for compatibility sake.
You can make steam run as administrator by locating your steam.exe (or you desktop shortcut if you have one), going to properties, go to the compatibility tab, locate the option that says run as administrator, and click apply and OK. Sometimes controller input can get wonky if steam isn’t run as admin.
This happens to me too, but what button gets affected seems to vary. It also seems to happen any time I change my skills on my skill bar using only my controller.
Leaving the game (you don’t need to exit to desktop) and coming back in fixes the issue temporarily for me.
If anyone else ends up here, I had this issue start happening with my logitech F310 controller, I was able to get-around it by switching between X (Xbox) to D (Dualshock) modes (a toggle switch on the back of the controller).