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Well, turns out it wasn't flash or firefox. Because Chrome was doing it too. Then skype, then photoshop, then farcry 3 blooddragon.. after further investigation, I found that my primary SSD was getting hit hard with 339KB/s R/W 100% load for exactly 60 second at a time. Sometimes 15 min breaks of usefulness in between, but then began to get about 1-2 mins between episodes.
Fuckit
Rebooted into linux mint live USB and did a memory cell cleaning, reloaded OS and voila. Problem gone.
I think when I unhooked an internal drive to use as external, the OS did not like that and began degrading.. or.. the SSD took a static shock that rewrote some cells when I was cleaning out the inside of the case when I took that other HDD out.
I also flipped my PGU card's bios to unprotected mode and had a whole other slew of issues.... not a good computing month so far haha
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