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The ^ prefix is defined in qa-config.php. Can I create my own prefixes for my own non-core tables in this file also, provided I modify the function qa_db_apply_sub in qa-db.php

Also, is this the best approach? I would like to separate the core Q2A from my own logic as much as possible. 

related to an answer for: What is this "caret" syntax?

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Yes, this should work fine. Just make sure to pick a symbol which you'll never want to use in your SQL code!
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