Why not add a score multiplier by a percentage for either Allied or Axis low attendence numbers?
Lets say Allied has 75 show up, but Axis has only 67 show up...that would mean that Axis is 10% less strength than the Allied.
So, the score would be adjusted by 10%. Example:
Axis (67 attend of the expected 75 shown at the least amount that each squad signed up for, 10-15 would be counted with a nominal number of 12)
So, Axis get 500 points in the frame, times (X) 10%, giving them actually 550.
What do you think?