Messagebox notifications had to be revamped in the latest version. But unless Kevin indicates differently, we probably won't be able to go back to something that accommodates your workflow. Mainly because using Sigil to make bulk epub edits (even if that's being accomplished by opening multiple instances of Sigil) is not something we're interested in accommodating. It was only working by accident in earlier versions. I'm afraid that downgrading Sigil to an earlier version might be your only option to get back to earlier behavior. Sorry.
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