I got a new desk and had to unplug all the cables and stuff, but even though everything went right back into the same ports, DisplayFusion switched what was considered Display 1 and Display 2.

Windows always detected my primary monitor as ID-2 and my TV as ID-1 (very annoying btw) but Display Fusion used to have it switched, the monitor was ID-1 and the TV had ID-2. I know this because I have a bunch of triggers for games that use "Move to selected monitor: #2" as an automatic function.

But after setting up my desk and plugging the cables back in, exactly where they always were, DisplayFusion now sees my TV as ID-1. It's now the same as how Windows detects it, but my triggers and my monitor profiles are now all switched around. Is there a way to have have DisplayFusion see my TV as ID-2 again so I don't have to manually configure all my Monitor Profiles and Triggers again?

I'll keep an eye out, but it was like that since I initially got DisplayFusion a few months back, I think in November. It always had different IDs than in Windows until now. I changed my triggers and configurations and it's working right so it's all fine, if a bit confusing. It's arguably working better than before, because I used to get a black screen for a few seconds when switching monitor profile, now it's near seamless, so lucky accident I guess.

This happens to me too. I have a laptop connected to a docking station and every now and then, when I reconnect it to the dock, Windows will change the monitor IDs which messes up my DF monitor profiles.