Add argocd.argoproj.io/compare-options: IgnoreExtraneous to the deployment, as shown below:
apiVersion: apps/v1
kind: Deployment
metadata:
  name: my-app
  annotations:
    argocd.argoproj.io/compare-options: IgnoreExtraneous
spec:
  ...

apiVersion: v1
kind: ConfigMap
metadata:
  namespace: argocd
  labels:
    app.kubernetes.io/name: argocd-cm
    app.kubernetes.io/part-of: argocd
  name: argocd-cm
data:
  resource.customizations: |
    apps/Deployment:
      health.lua: |
        local health_check = {}
        health_check.status = "Progressing"
        health_check.message = "replication controller is waiting for pods to run"
        if obj.metadata.labels ~= nil and type(obj.metadata.labels) == "table" and obj.metadata.labels["skip-health"] == "true" then
          health_check.status = "Healthy"
          health_check.message = "Application is progressing"
          return health_check
        end
        return nil