You can change the amount of experience required per AA point in the Rule Value table in the DB. You can also, in the same table, adjust rates at which XP is gained for AA and regular XP individually. I would toy with this until you find a good balance.
As far as progression; yes there are ways to do this, but things post GoD are going to have to be custom. The easiest way to do flagging is via PERL, or if you're not comfortable doing that, you can do what I did and use keys until you figure out your way around a perl script. I would highly suggest looking at the perl reference on the wiki.
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