Motion ignores filters on export

I have a Motion 2 project with three background video layers which crossfade into each other, and various animated text elements that appear on the top layers. The video files were created in a 3D app, and when viewed in FCP/Motion they seemed to need a gamma adjustment (too light/washed out). I used levels filters on each of the video layers, and they look fine when playing in Motion.
However, when exporting the sequence to Compressor (mp2 2-pass 5MbVBR for use in DVDSP), everything looks great except the video tracks are back to looking washed out.
Why is Motion/Compressor ignoring my levels adjustments?
Do the tracks need to be rendered in FCP before importing into Motion? That seems to defeat the purpose of having the filters in the first place (in case they need to be tweaked while working - or after previewing on DVD)
Any ideas?

I think I should clarify further:
The project is being exported thru Compressor directly from within Motion - not FCP. The only reason I mentioned FCP was because I had first noticed the incorrect gamma issue there. Soon after, I decided that these clips would be used as a DVD menu backdrop and thought it would be easier to do the whole 30 second composite in Motion. So I recreated the cross fades (using fade-in/fade-out behavior) and levels correction (filters) within Motion before adding the other elements.
I mentioned rendering the tracks in FCP (with a gamma correction) as an alternative solution because I haven't (yet) found a way to "flatten" the layers in Motion before exporting thru Compressor. But even so, that's hardly an elegant solution.
I find it curious that the filters I have applied to text layers (in the same animation) showed up in my .mp2, but the levels adjustments were somehow lost in transit...

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