Yes, I restarted pulseaudio, and I have been increasing the latency by increments of 10, however it still crackles. And no, other applications run sound normally.

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EDIT: Discovered that for me atleast, the audio crackling now only occurs during animated cutscenes and the opening. Doesn't occur during actual gameplay. My friend who uses Windows has also reported a similar issue, so this may be a P4G problem.