This comment “but it seems to mirror how the machine spits out my work when I set it that way” assures me it’s a configuration issue. Been there, done that… One of the parts your data is flowing through is referencing a different ‘home’ or absolute 0,0 position. If it’s only Lightburn and your laser, one of them is mis configured. Don’t need to know about switches, it’s where the head homes. On power up it ‘heads’ (both x and y) to the limit switches. This is in the configuration of a ‘homing’ direction on the controller.
When you power up your machine, it will ‘home.’ Pick that corner. BACKUP you original configuration before modifying ANYTHING. If it’s not too late.
The machine defaults to certain positions, setup by the manufacturer for it to operate with accompanied software. The software has to be configurable to take into account where the home position is, or absolute coordinates of 0,0. Don’t try and modify the internals until you get the ‘hang’ of what you’re doing. You’ll just drive yourself nuts.
I have always found that when some kinds of image reversals or something similar happen, it’s a configuration issue. If you haven’t modified the machine or it’s firmware, the software must be the culprit. That’s a good starting place.
Another thing I found, thinking something works one way when it doesn’t. If possible read the documentation. All of the ‘buttons’ and ‘check boxes’ are in the documentation for lightburn.
Good luck. Take care…