What type of interface is running between the mac mini and LS9? My initial thought seems to be it would be a swapped cable on a stereo split and maybe there isn't any type of DI or interface being used. If you PFL the left input channel only, do you hear what you're expecting on the left side? Are you running the input to a stereo paired channel, stereo return, etc? It's been a while since I've worked on an LS9 but if you can give us some more details on how things are connected we might be able to help.
Oof, okay I hope I'm using the right terminology.
Mac mini is connected to a HDMI Splitter (because we use it to project images to a projector), which is connected to a Kramer Presentation Switcher via HDMI. From the switcher we go from the S/PDIF output to a RCA? splitter, which on the other end goes to a patch panel, and links it to 2 inputs on the LS9. (This was setup before I took the job at the school)
Confusing? yes 100%.
Honestly I wouldn't notice the issue, if we were playing music and it comes out both right and left speakers. It's because of this one sound cue (incoming train) we realize the sound should be coming left to right but the sound is coming right to left (apparently this a big deal cause it will confuse the students).
I'd swap the connectors (or repatch them if they're currently normaled) at the patch panel and call it a day.
If that's not workable, though I can't see why it would not be, maybe you could use some sort of audio editing program to swap the channels on the Mac.
So if you hook up a mono microphone and pan it back and forth, does it correctly pan in the booth monitors? And presumably also reversed in the mains?
If so, you then must have the channels switched up somewhere between the board and the main speakers. If, instead, you get proper panning in the mains but incorrect in the booth monitors, then the booth monitors and the connection from the computer both have a channel flip-flop somewhere. As it's a digital console, it is possible (or I suspect it is possible--I don't have specific experience with the LS9) that the switching might be in the setup and routing inside the mixer, rather than misconnected cables exclusively.
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