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Perhaps an example would be in order or a link to the technique you describe above.

....I am currently trying to create a 2D animated doll, with individual  pieces/layers easily replaceable with new designs.  The idea is, the  doll consists of pieces (chest, waist, thigh, shin, foot, etc.) which  are animated with simple transformations.  Replacing the "source" piece  reflects the change throughout the entire animation.

I have already achieved this at a basic level by using smart objects.   Each frame of the animation is a group full of linked copies of the  original doll parts, so editing the original propagates the change  throughout all frames.......