Are you saying you used the same cables before? And are they new or old(er) cables? Could it be the speakers making the noise?
If the same cables, then they COULD be damaged when plugging out of the old and into the new speakers (especially older cables).
Best thing is to test the entire sound chain.
First thing to try is hooking up your mp3 player/ipad/iphone/ipod with a 4ft mini-jack to RCA cable to the S4 (channel D, make sure the switches are set to line and thru). This will allow the S4 to play music off your device directly to speakers (only the master volume knob is active). No crackles? The problem is most likely in the PC. Still crackles? It’s not the PC that is at fault, but something else.
Next thing to try would be to hook up your device directly to the speakers. No crackles? Probably the RCA cable is at fault. Still crackles? The fault probably lies in the speakers.
The only way to make sure it’s the speakers is by replacing (on of) them with another speaker.
Hope that helps.
Greetinx,
C.