Alpha channel trouble

I'm attempting to export some keying work I've done with an alpha channel attached.
The stuff was shot via xdcam ex 72050p, I keyed the footage then exported it with animation codec with millions colors+. However when I import the footage back to FCP the alpha channels comes out black even though it recognizes the clip to have a straight alpha channel. I've had a look at it in quicktime with a straight alpha channel but still nothing.
Is there something incredible stupid I'm not doing, this usually has worked in the past. Any help would be great!
Much Thanks, Matt

Yeah that was my next step, that has seemed to have done it, bit weird that I can't key it in a XDcamex sequence then just export with animation, abit confused.
Thanks for the help though

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          ((float*)gFormatRecord->data)[ i * 4 + 2 ] = ((float*)lightBuffer)[ i * 3 + 2 ];
          ((float*)gFormatRecord->data)[ i * 4 + 3 ] = ((float*)alphaBuffer)[ i * 3 ];
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        delete[] (float*)alphaBuffer;
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