You can replicate the runs over the three incubators, from a DOE point of view it would be less efficient (you use more runs than strictly necessary), compared to considering 8 independent factors, incubator entity being one of those.
I can imagine you may have practical reasons to do the same thing on each incubator. In these situations, I like to construct a DOE table and use the "Evaluate Design" feature. The platform already provides comparison to full factorial design, I always look at "fractional increase of confidence interval". You can also compare to other scenarios, e.g., a D-optimal design with the same number of runs.