diff --git a/pkg/resources/config/manifests/kustomization.yaml b/pkg/resources/config/manifests/kustomization.yaml
index c382591f96..1af136a8a1 100644
--- a/pkg/resources/config/manifests/kustomization.yaml
+++ b/pkg/resources/config/manifests/kustomization.yaml
@@ -19,9 +19,9 @@ kind: Kustomization
 
 # Labels to add to all resources and selectors.
 labels:
-- includeSelectors: true
-  pairs:
-    app: camel-k
+  - pairs:
+      app: camel-k
+    includeSelectors: true
 
 resources:
 - ../manager
@@ -31,10 +31,8 @@ resources:
 - ../rbac
 - ../rbac/namespaced
 
-patches:
-  - path: patch-delete-user-cluster-role.yaml
-    target:
-      kind: ClusterRole
+patchesStrategicMerge:
+- patch-delete-user-cluster-role.yaml
 images:
 - name: docker.io/apache/camel-k
   newName: docker.io/apache/camel-k
diff --git a/pkg/resources/config/samples/kustomization.yaml b/pkg/resources/config/samples/kustomization.yaml
index 550537dbee..b7fbc0c90a 100644
--- a/pkg/resources/config/samples/kustomization.yaml
+++ b/pkg/resources/config/samples/kustomization.yaml
@@ -20,10 +20,6 @@
 # customizes the integration platform custom resource
 # Edit the patch manually to add required configuration
 #
-
-apiVersion: kustomize.config.k8s.io/v1beta1
-kind: Kustomization
-
 resources:
 - bases/camel_v1_integrationplatform.yaml
 - bases/camel_v1_integrationprofile.yaml
@@ -34,7 +30,5 @@ resources:
 - bases/camel_v1_kamelet.yaml
 - bases/camel_v1_pipe.yaml
 
-patches:
-  - path: patch-integration-platform.yaml
-    target:
-      kind: IntegrationPlatform
+patchesStrategicMerge:
+- patch-integration-platform.yaml
diff --git a/pkg/resources/config/scorecard/kustomization.yaml b/pkg/resources/config/scorecard/kustomization.yaml
index b9cea2ad2a..7fbd50703c 100644
--- a/pkg/resources/config/scorecard/kustomization.yaml
+++ b/pkg/resources/config/scorecard/kustomization.yaml
@@ -17,7 +17,7 @@
 
 resources:
 - bases/config.yaml
-patches:
+patchesJson6902:
 - path: patches/basic.config.yaml
   target:
     group: scorecard.operatorframework.io
@@ -30,4 +30,4 @@ patches:
     version: v1alpha3
     kind: Configuration
     name: config
-# +kubebuilder:scaffold:patches
+# +kubebuilder:scaffold:patchesJson6902