I am surprised that you got through ANY scanners with live ammo in your checked suitcase????
Which country did you hunt?
In the states I always put the ammo in the case with the rifle. Always. It is not an issue. Very different than travelling elsewhere.
On the way to SA from the states I put my locked ammo case inside of my locked checked luggage. The only time I have it separate is on the way back, or within African countries.