It's actually pretty hard to dig into it unless you're a member of the community, and even then.
There is financial fraud at the top. It's really easy to skim off the $25B. I'm not too worried about that.
What worries me more is widespread research fraud. Hiring rewards high-impact research, and not high-integrity research. I do have visibility into a lot of research in the Institute, and about half of the high-profile results I see come out have had some level of fraud that I know about (at least as a typical person would define it), and I suspect far more that I don't know about.
Note that I chose my words carefully there. The caveats:
(1) Many things, if done carefully, aren't fraud in the prosecutable sense, but lead to bad science.
(2) Most results are low-profile results. I define "high-profile" as roughly the level to either make major press or to get a tenure-track job.
I had a position which gave me a lot of visibility into this stuff. I can talk about this in online forums, but in real life, I'm under legal agreements with the Institute which would make this kind of conversation impossible.
One of the first things which would need to happen for me to trust MIT research at all is the elimination of NDA / non-disparage gag agreements.