diff --git a/Makefile b/Makefile
index aa5118ece..b3ca3523d 100644
--- a/Makefile
+++ b/Makefile
@@ -255,7 +255,9 @@ install: manifests kustomize ## Install CRDs into the K8s cluster specified in ~
 
 .PHONY: uninstall
 uninstall: manifests kustomize ## Uninstall CRDs from the K8s cluster specified in ~/.kube/config. Call with ignore-not-found=true to ignore resource not found errors during deletion.
+	$(KUSTOMIZE) fn run config/crd/mcad --image gcr.io/kpt-fn/apply-setters:v0.2.0 -- MCAD_CRD=$(MCAD_CRD)
 	$(KUSTOMIZE) build config/crd | kubectl delete --ignore-not-found=$(ignore-not-found) -f -
+	git restore config/*
 
 .PHONY: deploy
 deploy: manifests kustomize ## Deploy controller to the K8s cluster specified in ~/.kube/config.
@@ -266,7 +268,9 @@ deploy: manifests kustomize ## Deploy controller to the K8s cluster specified in
 
 .PHONY: undeploy
 undeploy: ## Undeploy controller from the K8s cluster specified in ~/.kube/config. Call with ignore-not-found=true to ignore resource not found errors during deletion.
+	$(KUSTOMIZE) fn run config/crd/mcad --image gcr.io/kpt-fn/apply-setters:v0.2.0 -- MCAD_CRD=$(MCAD_CRD)
 	$(KUSTOMIZE) build config/default | kubectl delete --ignore-not-found=$(ignore-not-found) -f -
+	git restore config/*
 
 ##@ Build Dependencies