Also saw similar issues where background script becomes unresponsive and can't even input any expressions. While debugging, script will become responsive again only after close/reopen of background script debugger.
Curious if you're using sendNativeMessage()? For me, some changes to that method (or removing it) fixed my particular flow and bg script stopped becoming unresponsive.
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luxu/swaminathanv, did you guys ever find working solution? I'm now trying on manifest 3 and trying this approach with host_permissions without success.