Definitely. Within your experiment, each 'Item' would be any stimuli that an experiment file can support. All items and questionnaires would include a WGR value of 0, whereas each group would contain a different BGR (randomize between groups) value. By specifying that each 'Item' -> 'Questionnaire' is part of a separate group, you can very easily accomplish the randomization that you require.

At the end of the questionnaire you could skip to the debrief at the end of the experiment file (or just move to it at the end of the questionnaire, so that you don't skip over the remaining experiment groups). The SkipTo function is very powerful within MediaLab. If you have the chance, you may also want to see how excel can be used to create complex skips.

Please let me know if you have any additional questions or if I can help in any way.