If you haven't upgraded your alternator yet, you should. Your system will sound better because you'll have constant power to your amps. It will be cleaner power which will be clearer sound.
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And for all the reason why you should get an upgraded alternator...
Here are some selections from an article on audio system power design. The whole article can be found here:
http://caraudiobook.com/car_audio_el...al_systems.htm
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Depending on your car's factory electrical system, you may not have enough power to run your aftermarket stereo system. You probably do unless you have a multi-megawatt system or an extremely tiny alternator. Generally systems under 500 watts will not need an upgrade.
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If one battery is good then two must be better. Right? Wrong. Remember that the function of a battery is to start the vehicle and to provide power when the vehicle is not running. The only thing a second battery will help you with is "parking lot" listening time. Basically it will provide you the additional capacity to run your stereo longer without starting the vehicle. After the vehicle is started the second battery becomes another load on an already overworked alternator.
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you may need to upgrade your alternator. Doing so will give you more juice to run all of your electrical components, including your stereo system, without looking to the battery for help. The problem is your alternator is undersized for your new electrical requirements and has to look to the battery to provide the extra power, resulting in shortened battery life.
Upgrading your alternator will also allow you to run a smaller battery with higher output stereo systems.
