guitarcollege
In your example, where you use CC0, does that call up FM9 preset 449? It should because FM9 uses CC0 to tell it the bank number. So, bank 3, number 65=preset 449.
From there, just use whatever CC you assign to scene change to make your scene changes automatically while ST3 plays. I use CC34 because it's what Fractal had previously designated for scene changes in older products. If you type that exact MIDI command plus add CC34.1@1 (put a comma before the command, and separate any additional commands with a comma also) at the time you want the FM9 to change scenes, it should work. You do need to tell the FM9 what CC# you want to use for scene changes. In the FM9 editor, go to the SETUP menu, then MIDI/Remote, then the "other" tab, then scroll down until you see a box for entering the scene change CC#. Put in whatever number you want, but a lot of people, like me, use 34.
I didn't watch the YT video yet, but my guess is that it's Scott Uhl's. If so, I learned all this stuff from him (and a couple people here and on the Fractal Forum), too.
Let me know if you're still stuck. Btw, I am also using a WIDI jack to do this wirelessly via bluetooth from my iPad. Mind. Blown.!!