Nothing to do with MB/BIOS.
OS (and apps) decide which core to execute at; apps dictates how large the working set is.
If the working set is too large or the task scheduling is screwed, performance will become miserable.(two simple reason of performance drop)
HT decreases Linpack GFlops by a lot.
Nehalem delivers higher GFlops than Penryn with HT off.




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