I think this is one of those settings that you can't change - when you create the QB Company the VAT question affects quite a number of other settings, so is made permanent.
Option 1 : delete the QB Company & start again.
Option 2 : search 'deregister for VAT' on here - that will give you the steps to make sure all your (future) transactions are entered as NoVAT & uncouple from VAT MTD.
Hope this helps.
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