It's the Swiss cross, not a Christian cross.
The rumour I heard was the objection was so strong they were going to replace ALL the flight bags but it seems to me if this were true they would not have just issued a notice that use of the bag is mandatory beginning August 1st.
Then again, ya never know here.
Personally I like the bag. It's not a raise but it's a good, well designed, well made flight bag.