I am in favor of allowing an organization the freedom to require its members to profess their belief in a Creator, yes.
The are a myriad of other organizations who do not require of it's members a belief in a Creator. Let those who cannot accept the position of the BSA turn to these other, more accomodating organizations.
FWIW, the total sum of "mandatory religious indoctrination" is in the act of reciting the Scout Oath. I'm sure an atheist could fake it . . .
We have granted the Eagle rank to kids who attended no organized religion, but they did have to profess a belief in a "faith" even if that faith were as vague as the collection of all living things or the spirit of scouting. It was intended that the religion mean one of the many organized religions, but scouts have always been accomodative in this area. Not so in the area of sexual preferrence.