I am pleased with the decision. I was brought up a catholic ( with intense indoctrination at school) moved to c of e as a young adult , rejected organised religion with the influx of creationists and literal believers into C of E and now would consider myself an atheist.
I agree that taking children out of worship stigmatises them , They however wanted it as teenagers and I was not prepared to allow Baptists , evangelicals and young earth creationists to preach to them in school assemblies either. So they were removed/ it was not easy.
Ironically this was a joint church C of E school that I had chosen to avoid the more fundamental “Christian” religions in our area. The headteacher was furious and threatened to report me to social services !
I was happy for my children to learn about other religions and to be respectful but not to be indoctrinated .