Specifying a specific argocd version with 'Repo bootstrap --app' is missing a patch

[AlexEndris]

As stated by @noam-codefresh here https://github.com/argoproj-labs/argocd-autopilot/issues/557#issuecomment-1940654562 the autopilot installation is missing a crucial patch in the kustomization.yaml resulting in a broken installation when using the --app flag for specifying an argocd version without referencing this repository's kustomization.yaml

As a side note: It would be good if the installation didn't reference this repository's /base or /ha kustomize folder in the first place to give more direct control over the version of argocd that is being used, if at all feasible.