There is no issue with MOS. Early reports of mounting issues were folks using the wrong screws (too long) and messing it up. If one followed the instructions, used the correct plate, and used the correct screws all was fine.
Yes, a milled slide allows the sight to sit lower.
Yes, a milled slide may more securely hold the optic.
But those advantages have legitimate counterpoints. To get the milled lower fit, you have to sacrifice a slide (which Glock is unwilling to sell, which is baffling considering their competitors all do!), and pay the added cost of milling and addressing the newly exposed steel (do you nitride it, etc.).
And if a better/improved/bigger/smaller optic comes out in six years, a milled slide is stuck. A new MOS can be easily supplied (or created). How long will a gun last and still be current compared to a red dot (both longevity AND technology changes)?
I see both as fine, but I don't fear the MOS. I like it, and have been able to put a couple different red dots on the same gun. I am willing to sacrifice 2mm of height increase for the cost savings, hassle avoidance, and future flexibility.
I may still have a gun milled (not a Glock... see my slide complaint earlier!) for a red dot. If I do, I am sure I will enjoy those benefits (and endure the risks), too!