If I understand you accurately, you have a model like the following
Connectivity with seed B = a0 + b1 * A + b2 * C + b3 * A * C + b4 * movement + b5 * age + b6 * gender + e
> To accomplish this end, could you please confirm that 3dttest++ should be run with each subject's z-scored
> whole-brain connectivity map with seed region B as inputs and Variable A and Variable C entered as covariates?
Yes 3dttest++ can take care of the analysis. If you are not interested in the parameter a0 in the model. You don't need to worry about centering.
> If so, could you please clarify how to interpret the output?
> To get the main effects of each behavioral factor (A & C) independently, would a separate 3dttest++ need to
> be run without the other variable (A or C)?
No, you don't need to run separate analyses. One analysis should give everything you want. The main effects of A and C are just b1 and b2 in the model.
Gang