I hadn't even considered that angle when I was looking for a cub scout troop for my son a few years ago. I was fortunate enough to be a part of BSA when my dad was stationed in Germany so we were essentially sponsored by the base and there was no connection to a church organization. In the US I am finding that all troops are associated with churches and since I (as an atheist) am raising my son to be a free-thinker I figured there would be friction at some point since we don't go to church. I was honestly less concerned about gropey scout-masters since I intended to be with him on each trip and am handy with a hatchet.

IMO and in hindsight, there is also a level of over-the-top christo-patriotism that I basically overlooked when I was younger that makes me want to cringe now as an adult. These factors have been enough for me to take a more informal route to teach him outdoorsman-ship via campouts at state parks since I can't find any secular scouting options in my area. Its a shame since I did have some great experiences in scouting but I can't give him anything like the opportunities I had as a military brat in Europe.