I would first try just using all 8 cores for each slot. If that is crap then just try using 1, 3, 5, and 7 for all of the slots and let windows handle the virtualization. If that is still crap turn off the hyper threading in the BIOS and then double check your ISBoxer config and keep all slots assigned across all cores and see what happens. I guess... last but not least I would build a window layout that uses 1 monitor only just for test purposes and see if that has any impact what-so-ever [or you could try this first before messing with CPU affinity].
I can't speak positive for SLI while multiboxing, everyone so far has had improvements by disabling it. You have newer 4xx cards so anything is worth a shot if the above doesn't give any change. I doubt the memory clock would do much if you're already at 4GHz unless you've really really really loosened the timings.
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