Councillors voted in favour of closing Almondbury Community School's secondary provision at a packed meeting in Huddersfield's town hall - despite the pleas from some of its pupils.
The proposals to close it came soon after it made headlines - when a video of alleged bullying involving pupils was widely shared online.
Kirklees council has consulted parents but says the school which was rated inadequate last year is under subscribed.
The plan is to keep the primary school part and to send around 300 secondary pupils elsewhere.
The council will now make its plans public and consider any more objections.
Parents say they'll continue to fight the proposals.
Councillor Masood Ahmed, Cabinet member for Learning and Aspiration said: