Some background information about RER, it's probably over-simplifying things:
https://web.cortland.edu/buckenmeyerp/fall2004/labrvalue.html
This is the machine that reports the RER and oxygen use and CO2 production in everyday settings:
I agree that the concept of this study was excellent, exactly the sort of fundamental investigation using wearable technology that we've needed for so long, and the implementation of the testing with people with ME/CFS sounds to have been done really well too. The RER findings reflects what I feel, that doing trivial tasks of everyday living makes my body work abnormally hard.
I think the presentation of the data lets the paper down though. That paragraph I quoted above (copied here again), for example, does not give us the detail needed to understand what is happening. Yes, the means are different, but we don't know how much of an overlap there was between people with ME/CFS and healthy controls for 'time with physiological stress', 'time in recovery' or 'ratio of time spent in physiological stress and in recovery'. There should be some statistical analysis of difference between the people with ME/CFS and healthy controls for those parameters where there was data from healthy controls. If the authors felt that their study was too small and preliminary for such statistics, they could have at least presented results for each participant (ME/CFS and healthy) in a table, or shown the individual data in plots.
I hope that this group and others do much more of this sort of study, with bigger groups, stratified by activity levels, with sedentary controls and chronic illness controls and, yes, exploring the things that others have suggested such as impact of menstrual cycle and digestion, and cognitive effort alone, and during sleep too. I think there are lots of relatively easy studies using the wearable technology, and especially the portable cardio-pulmonary monitoring system, that could be done that would be useful.