I hit the same problem an 2 years ago. My setup. Electric fan, replaced headlight to halogen, msd setup and sound setup with amplifier and bass box in the trunk.
So my stock alternator giving 60 or 80 amps of something did not last long, after replacing, still was having issue's.
My solution and since doing all this never had any issue's any more:
Alternator : Powermaster 8-47529, 140 amp
Installed an "capacitor" for the sound. I went with 1 farad
And I went with an optima Gel battery.
I have completely new wiring running in my car.
No issue's any more.
Good luck.