Edit 2 (Latest) - I solved the "bleeping" issue - I just redownloaded PCSX2 (I downloaded the binary which I did before) and I imported the memory cards (not the save states).
I loaded the game and the sound issue is gone! Odd, maybe I accidentally hit something that changed the settings or there was a weird file corruption?
Try using a fresh version of PCSX2 (I downloaded the binary if it makes any difference) if anyone else has the bleeping sound issue. (Note my issue only occurred with dungeon music but not town music so it may not be the same issue as others).
Also thanks developers of PCSX2 (and anyone that contributes or help too) - This is a great emulator and the latest version works well
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(Old post. Kept for reference).
Hey I just recently have had a similar problem. I hear bleep (it's a sharp bleep) but this is only during music.
For other people do you have it occur during music? When I go to the menu for example, I can hear the bleep during certain parts of the music.
The problem started after I loaded the game (using memory card, not save states) and the music is the West Sandsea area and it also occurs during boss battle music (only during a certain part of the music).
Edit: I just checked the beep noises occur in most dungeon areas (the sewers, Wester Sand (which has different music compared to West Sandsea) but not in towns (not Rabanastre at least).
Also I have played over 10+ hours without the problem but I only have got it recently for some reason
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Anyone know what could cause the problem to suddenly occur? (I changed no settings and loaded from virtual memory card and I had no problems in the area before)
I'm using the latest version of PCSX2 (.98) and the plugins that came with it (sound plugin is SPUX-2/spu2-x-r4600).