Dear Rick,
Thank you kindly for your reply. The one dataset in the command was actually a concatenation of 13 runs -- per your suggestion (I think), I will use the concat option and split them into individual runs. Regarding the stim files... I was under the impression that you can pass condition files (with 0s and 1s) to 3dDeconvolve, from which the appropriate stim_times would be created and used by the program. Is there not a way to do this without initially convolving the event files?
Thanks again!
Jeff