Hi Nev,
I am also having this issue/feature where i cannot start/stop at a given inframe other than 0.

You will excuse some of my terminology
-layer 1 + 2 starting at at 0 inframe, stop , intensity @0%
-layer 1 at 100% intensity,play loop forward layer 2 @ 0% Intensity stop
-layer 1 stop @ 0% Intensity Layer 2@ 100% intensity play loop forward.
-layer 2 stop @ 0% Intensity Layer 1@ 100% intensity play forward.

How do i get the correct layer to resume from the correct stop point if quicktime files always reset as you are suggesting or am i reading this incorrectly.

Thanks in advance for your time.