Hi, no words of comfort yet I'm afraid. Just wanted to answer because I am in the same boat.
I have DS1 & DS2 at home, after having bullying & settling problems at school. DS2 left 18 months ago at the start of year 6, having been bullied/isolated for all of year 5, followed by DS1 10 months ago, at Easter, in year 8, having struggled to cope with the stresses of grammar school. Both are now happy, settled & learning from home.
DS3 is in year 6 & is adamant he wants to stay at school, doesn't want to spend all day with his brothers (boy, how I can understand that!) & enjoys the social side of school & would miss his mates. However, at the same time, he whinges every time we go out on a HE social or learning thing, seems to lots of 'illness', stomach ache, tiredness etc - anything to get a day off school. He moans about the boring lessons, has started to look at the school rules differently & comments on how unfair they are. He has also 'switched off' from learning outside of school, so homework is a nightmare. He barely tries at school, does 'just enough' to stay close to the top (not top, ever, he just won't put the extra effort in).
I have watched the spark go out in his eyes for anything remotely linked to learning & it's heartbreaking. Trouble is, I'm not sure if it's school doing it, the fact he might secretly want to home Ed, or he sees home education & school education completely separate & compartmentalises the two, which means he does nothing outside of the school grounds/hours.
I thought giving him the choice was the responsible thing to do (& honestly thought he would jump at the chance of leaving school). Now though, I'm not so sure & I wish I had just made the decision for him & taken him out of school.
Not sure if I've hi-jacked your thread, or if the above offers you any comfort/help/ideas...