How to identify the message with a virus
Several times a day my ESET antivirus pops up with a warning that it has found a Trojan Virus in the INBOX file of my Thunderbird profile. It offers to quarantine the file, which I deny out of concern that it will damage the other messages. But how can I identify which message contains the virus and delete it? The AV sees the entire Inbox file as a single file, without distinguishing the individual messages.
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You could save the folder as a set of eml files: select all messages (Ctrl+A), then File/Save As/File, then have ESET scan the eml files and see if it identifies the suspect message.
That sounds like a good idea. The Inbox file is 2.2GB big, so I will set it to save individual files overnight and see what happens.
It's generally recommended to exclude the TB profile folder from AV scans, as it doesn't offer any advantages over the normal real-time background scan, but it has several disadvantages, such as the one you have experienced: