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It sounds like the helm value .Values.csi.provisioner.topology should be changed to set --with-topology for the node and controller plugins, instead of setting the Topology feature gate.
Alternatively maybe a completely new value should be used instead of reusing .Values.csi.provisioner.topology , but then the issue and ambiguity remains with having different settings to disable topology in different ways.
Personally I would lean towards the simplest and cleanest change, even if it is breaking behaviour.
But I don't know all the intricacies involved.