yes, i have seen this issue come up a lot with Hthreading. It seems max likes it, maya doesnt.
check out these comparisons from toms hardware. the first page with max, intels w/ HT dominate.. but in the second test with maya intels perform better without HT and also opterons dominate. opterons dont use Hthreading.
also another factor i have recentlyt learnied is this. if you use max, use xeons, if you use maya, use opterons. why? because max uses SSE3, maya does not. and xeons have SSE3, opterons dont. but from what i've read, opterons will have SSE3 in there next revision. When is still unclear tho.