There has been a lot of speculation concerning alignment changes that occur when you destroy deployed fighters. A lot of it is utter nonsense. Through experiments I have determined the proper formulas for calculating the alignment change for destroying deployed fighters.
 

First, there is a bug related to player slot #1. Fighters belonging to player #1 will get an alignment signature of -1000 regardless of the alignment of player #1. (Gary forgot to change something! [surprise surprise!] With the above noted exception the fighters get an alignment signature equal to the player they belong to.

The formulas:
 
+aligned fighters - aligned fighters
 
good
aligned AC=-(FL*FA)/10000 AC=+(FL*FA)/5000
player
 
bad
aligned AC=-(FL*FA)/5000 AC=+(FL*FA)/10000
player

where:

AC= Alignment change either positive or negative as indicated
FL= Fighters YOU lost, NOT fighters you destroyed
FA= Alignment signature of the fighters (ignoring sign)