This is crazy pants!
I haven't been involved with Hacker Scouts in 2013, but I was on the original advisory board for the group at School Factory. One of the things that I brought to that table was my previous experience organizing a small Spiral Scouts troupe when my eldest was a youngin'. They are ALSO not the Boy Scouts, by the way, in case you hadn't guessed.
In the early planning stages we discussed using the Mozilla open badges, and I don't know if they've gone with that model in the active tribes running now, but badges are certainly not unique to Boy Scouts, either.
Maybe they don't like the fact that Hacker Scouts is openly and strongly inclusive of all races, creeds (or non-creeds), genders, and sexual orientations. Maybe they just don't like the word "Hack".
No matter what the reason, I hope that Samantha Cook and her crew of Hacker Parents, Hacker Scouts and Hacker Sprouts are able to call themselves what they want and the BSA realizes that they are just getting themselves into more hot water for no good reason here.