Actually I'm amazed that TaQuilla is working for you, since the version posted on AMO is quite old. I'm working on updating it for the released TB 3.0 right now.
As for your problem, if the extension is successfully tagging the messages, then you should be able to search for them with the traditional search technology (using for example the View/messages/tags). If you are using the newer gloda search ("Search all messages") I'm not sure of the results. Let me add a bug report to my database though, perhaps I am not adding the notification that is needed so that gloda notices the changes and reindexes the message.
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