Did a test using A test file and AC3Filter, and channel mapping is incorrect (relating to BeSweet output).
EDIT:
I've tried to fix this in BeSweet using this:
Code:
D:\Temp\besweet>BeSweet.exe -core( -input "D:\Temp\besweet\6ch.ac3" -output "D:\Temp\besweet\6ch.wav" -6chwav ) -azid( -o l,c,r,sl,sr,lfe)
However the switch doesn't seem to be working, or maybe the sintax is wrong.