Not charging at idle.

If its dropping from 12.5 to 12.0 Volts then the battery is discharging.
That's a little different than not charging.
Is there anything drawing power on your setup other than ignition?
At what rpm does the system voltage start to rise above battery voltage?
About 1100 rpm is when it gets up to 14 volts using an aftermarket volt gauge installed. It's never died on me but it's gotten to about 11.9 before at night with lights on. I guess I'll keep an eye on it. If not I'll swap out the alternator since it's a lifetime warranty. It's a square back model.