Its not too difficult to do, If you have the capacity to make custom palettes, all you need to do is colour replace the background of the story board to a colour not used in the figure (you could keep the original green colour for instance, but if the figure has any green clothing, then it will become shadows or smoke). Then convert the storyboard to a civ compatible one (with blue as the civ colour).
Then create a flickster storyboard with the right number of frames (you will have to count them) of animation, at the right cell size (you will have to mesure one of the cells, or Steph can tell you.
You need one of these for each animation (some animations have different numbers of frames and frame sizes you have to be carefull not to mix them up). Then save the modified cossacks storybard over this flickster storboard as a .PCX image and finaly export it as a flick.
Most of this should be familiar to any one who has made a multi unit.