which firmware are you flashing it with? I just flashed my gf's 3550 with the 1.Y5 firmware (rpc1) here and had good results:
http://club.cdfreaks.com/showthread.php?t=157109
I've been using Liggy & Dee firmwares on my nec drives for two years with no problems, much better than the stock firmware. although your issue doesn't seem like a firmware issue, just thought I'd mention it
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