First you can get the latest OS here and update it with
sudo apt-get update && sudo apt-get -y upgrade && sudo shutdown -r now
Second the fix you read about may be the cause of the noise; There was a bug that caused a pop sound when turning the audio chip on or off when people press play/pause. The fix was to leave the audio chip on all the time or fox x seconds.
Plugging speakers into any live audio jacks causes a pop sound, mobile phones get around this by detectingdetecting and only enabling the jack when it's fully plugged.
You could turn off the chip before plugging speakers into it but you might still experience the click/pop when you turn it on again. The A/B+ and v2 use a different audio system so it might work.
Or you could turn the volume all the way down on an amp between the pi and the speakers.
If the clicking is continues you may have dirty power like from a square wave inverter (get a pure sine inverter instead or add a cap or use a good voltage regular)
Another option is the hifiberry.