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  1. IL-0058 Argo CD deleted namespaces shared by several applications, leaving about 97 applications stuck Missing and OutOfSync
    Argo CD users2026
    Symptoms

    After a rolling restart of the Argo CD application-controller, namespaces that several applications shared went into the Terminating state. About 97 applications were then stuck in a Missing/OutOfSync deadlock.

    Resources deleted
    Trigger

    A manual bulk sync with force: true from the Argo CD UI, run during the window after an application-controller restart, on an application whose manifests declared a namespace whose app.kubernetes.io/instance label pointed to a different application.

    Root cause
    Software defect
    Component
    Argo CD
    Contributing factor
    No safeguard on destructive changeUnverified assumptionHarmful manual action
    Action items
    • Refile the problem as #29739: a manual force sync hard-replaces shared cluster-scoped resources through a tracking-ID conflict, ignoring Prune=false
    Lessons

    The sync option Prune=false only protects the prune path; it does not stop a force sync from deleting and recreating a resource. When two Argo CD applications declare the same namespace or other cluster-scoped resource, force-syncing the application that does not own the tracking label can delete it at any time.

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By root cause1

Software defect1 case

Component
Argo CD
Contributing factor
Unverified assumptionHarmful manual actionNo safeguard on destructive change
Organisation
Argo CD users
  1. IL-0058 Argo CD deleted namespaces shared by several applications, leaving about 97 applications stuck Missing and OutOfSync
    Argo CD users2026