In your case with 3dttest++ for group comparison, it should give you three results in one analysis: one group comparison and two individual group results. So do you still see strong activation for one group in the same 3dttest++ output? Could you post your 3dttest++ script?
The pooled vs. unpooled issue usually should not make a big difference. How different in terms of the number of subjects across groups?
Conjunction analysis is only used as a post hoc method to obtain common activation areas, which does not seem to apply to your case.
Gang
Edited 1 time(s). Last edit at 04/11/2013 04:12PM by Gang.