Hi @mmcky ,
I found that the number of equation reference in MYST does not coincide with that in RST in lecture 12: Finite Markov Chains.
As the screen shot shows, the equation which should be referenced as (12.4) is referenced as (12.5) in MYST. And there is not an equation which is referenced as (12.4) in MYST. ( This means the equation which has a label before (12.5) is (12.3)) (left: RST, right:MYST)

I compared both files in VS code, but nothing seems to be wrong in MYST.
So far, I found this issue only in this lecture 12. So I have no idea why this happens. I'll comment when I find this issue in other lecture.