After Effects brush strokes vs BCC Flicker Fixer

I have numerous brush strokes (clone/stamp) that I have made in AE, and I’d like to apply the BCC flicker fixer on top of them. The default flicker fixer frame analysis doesn’t seem to do much here, but when I select temporal analysis, it seems to remove / bypass my AE brush strokes.

Is there a way to get the temporal analysis to apply after the brush strokes are applied?

You may want to precomp the shot in AE and thenapply the filter to the precomp to work past that problem.