This does not make sense. I can give an counter-example for this: the education market, especially the higher-education market. This market exists so long and aged so well that, in real life, enterprise-level deployment of Macs well-likely exist mostly in this market now. The down-side for this market: they are slow or reluctant to change. Those ones who make research-related or educational software never are quick enough to do the big jump for an architecture change. And they also might not be able hire more people to do this. And the customer also hate to do those type of changes, both the IT department and the researchers, nobody wants to find their code couldn’t run properly anymore on these new machines.
Actually for fMRI studies most people use matlab and share it. It is not really closed-sourced. But I guess many guys in the field won't bother too much to read the codes from a widely used and well-cited matlab script
Peer-review in biology-related fields doesn't bother too much about the details of your code. Only recently a few journals begin to ask guys to submit the source code if the manuscript is mainly about some new analysis methods. So it is more than likely even if you are reading submitted manuscript of a computer program, you won't read the source code with the paper.
Another thing is that statistical analysis is kind of the missing piece in many researches training. It maybe not be "researchers cut corners", but they might not know some of the prerequirements for the analyses used. Even in this year, 2016 when I talked with a colleague in my institute I found out he didn't know a single assumption for t-test, who is a senior postdoc and used it everyday.