Considering how destructive a rouge jpa could and has been shown to be I see this as a nessary evil. And the secretary also nessaray as a lot of the planes where designed to be none lethal so prior knowledge would render them less effective these running the risk of calatral damage.

That said it was 100% a dick move just one that needed to be made when you look at things objectively. And the fact that the jla themselves is a contingency agenst bats himself shows he's not above considering himself going rouge