I don't have AppCleaner but I do have Hazel, which offers a similar service. It cleared out the following files and folders:
/Library/Application Support/Final Cut Pro/
~/Library/Application Support/Final Cut Pro/
~/Library/Caches/com.apple.FinalCut
~/Library/Containers/com.apple.InternalFiltersXPC
~/Library/Preferences/com.apple.FinalCut.plist
~/Library/Preferences/com.apple.FinalCut.UserDestinations.plist
~/Library/Saved Application State/ com.apple.FinalCut.savedState
/private/var/folders/m_/[random string]/C/com.apple.FinalCut
After deleting those, deleting FCP itself, and reinstalling, I re-ran BruceX and the results got... worse??
10.12.4 / FCP 10.3.3 / Mac Pro 5,1 6-core / 48 GB RAM
Export setting: Apple ProRes 422 HQ
Export drive: Crucial MX100 256GB, lower drive bay
121s (125/119/118) : GTX 1060 6GB
Here's another screenshot of OpenGL Driver Monitor showing the three runs
The first run was the worst, but I don't see much difference in GPU utilization compared to the previous screenshot. Only real difference I can see is that the VRAM cycling isn't as 'deep' in the longer run.
Maybe I missed a pref or cache file somewhere? Maybe Compressor and Motion have to be clean-installed as well? If we can get a list of things Omegafilm removed, maybe we can reproduce the improvement.