diff --git a/cluster/addons/addon-manager/kube-addons.sh b/cluster/addons/addon-manager/kube-addons.sh
index 361a49dd853..84106852025 100755
--- a/cluster/addons/addon-manager/kube-addons.sh
+++ b/cluster/addons/addon-manager/kube-addons.sh
@@ -115,26 +115,7 @@ function create_resource_from_string() {
   return 1;
 }
 
-# $1 resource type.
-function annotate_addons() {
-  local -r obj_type=$1;
-
-  # Annotate to objects already have this annotation should fail.
-  # Only try once for now.
-  ${KUBECTL} ${KUBECTL_OPTS} annotate ${obj_type} --namespace=${SYSTEM_NAMESPACE} -l ${CLUSTER_SERVICE_LABEL}=true \
-    kubectl.kubernetes.io/last-applied-configuration='' --overwrite=false
-
-  if [[ $? -eq 0 ]]; then
-    log INFO "== Annotate resources completed successfully at $(date -Is) =="
-  else
-    log WRN "== Annotate resources completed with errors at $(date -Is) =="
-  fi
-}
-
-# $1 enable --prune or not.
 function reconcile_addons() {
-  local -r enable_prune=$1;
-
   # TODO: Remove the first command in future release.
   # Adding this for backward compatibility. Old addons have CLUSTER_SERVICE_LABEL=true and don't have
   # ADDON_MANAGER_LABEL=EnsureExists will still be reconciled.
@@ -143,12 +124,12 @@ function reconcile_addons() {
   log INFO "== Reconciling with deprecated label =="
   ${KUBECTL} ${KUBECTL_OPTS} apply --namespace=${SYSTEM_NAMESPACE} -f ${ADDON_PATH} \
     -l ${CLUSTER_SERVICE_LABEL}=true,${ADDON_MANAGER_LABEL}!=EnsureExists \
-    --prune=${enable_prune} --recursive | grep -v configured
+    --prune=true --recursive | grep -v configured
 
   log INFO "== Reconciling with addon-manager label =="
   ${KUBECTL} ${KUBECTL_OPTS} apply --namespace=${SYSTEM_NAMESPACE} -f ${ADDON_PATH} \
     -l ${CLUSTER_SERVICE_LABEL}!=true,${ADDON_MANAGER_LABEL}=Reconcile \
-    --prune=${enable_prune} --recursive | grep -v configured
+    --prune=true --recursive | grep -v configured
 
   log INFO "== Kubernetes addon reconcile completed at $(date -Is) =="
 }
@@ -191,38 +172,14 @@ for obj in $(find /etc/kubernetes/admission-controls \( -name \*.yaml -o -name \
   log INFO "++ obj ${obj} is created ++"
 done
 
-# TODO: The annotate and spin up parts should be removed after 1.6 is released.
-
-# Fake the "kubectl.kubernetes.io/last-applied-configuration" annotation on old resources
-# in order to clean them up by `kubectl apply --prune`.
-# RCs have to be annotated for 1.4->1.5+ upgrade, because we migrated from RCs to deployments for all default addons in 1.5.
-# Other types resources will also need this fake annotation if their names are changed,
-# otherwise they would be leaked during upgrade.
-log INFO "== Annotating the old addon resources at $(date -Is) =="
-annotate_addons ReplicationController
-annotate_addons Deployment
-
-# Create new addon resources by apply (with --prune=false).
-# The old RCs will not fight for pods created by new Deployments with the same label because the `controllerRef` feature.
-# The new Deployments will not fight for pods created by old RCs with the same label because the additional `pod-template-hash` label.
-# Apply will fail if some fields are modified but not are allowed, in that case should bump up addon version and name (e.g. handle externally).
-log INFO "== Executing apply to spin up new addon resources at $(date -Is) =="
-ensure_addons
-reconcile_addons false
-
-# Wait for new addons to be spinned up before delete old resources
-log INFO "== Wait for addons to be spinned up at $(date -Is) =="
-sleep ${ADDON_CHECK_INTERVAL_SEC}
-
 # Start the apply loop.
 # Check if the configuration has changed recently - in case the user
 # created/updated/deleted the files on the master.
 log INFO "== Entering periodical apply loop at $(date -Is) =="
 while true; do
   start_sec=$(date +"%s")
-  # Only print stderr for the readability of logging
   ensure_addons
-  reconcile_addons true
+  reconcile_addons
   end_sec=$(date +"%s")
   len_sec=$((${end_sec}-${start_sec}))
   # subtract the time passed from the sleep time