^ exactly.
The rotors were machined to tolerances, and then cleaned and then coated. The machining left too smooth of a surface, and the coating would not stick to it in many cases cause it had nothing to grab onto but its self. Kinda like when you paint something, you have to scuff up the surface as prep...same concept here. Running rich, lean, meth, N20 wet or dry does not directly harm the rotor coating. If its peeling after this is shot through it...then it was on its way to peel anyway.
They (Eaton) realized their mistake with Magnuson, and all their rebuilds they were doing. So when they redesigned the 3800 for 2004's new model, they redesigned the M90 as well. The case changed making it more efficient, and they changed their method for the rotor coating. The case make the GenV better, NOT the rotor coating.
The rotor coating was done this way for two reasons...1.) it was easier to control and apply and actually stuck and 2.)was designed to be applied thick, and would wear in the first couple of seconds of run time as its break in, sealing the rotors tighter to the case and themselves.
If the coating is coming off your M90 then its done. I would find you a good lower mileage GenIII off ebay, and buy it just for the rotors and be on your way. Running a M90 with no coating will not hurt it mechanically wise, just performance wise as it wont be able to pump as efficiently.
The company's out there that "recoat and rebuild" them are using spray on coating that you would use on piston skirts. nothing more, nothing less. Many times they do not re balance the rotors, and seen many of them not in time with each other when they ship them out. (they bind spinning them by hand). Cost effective when its all said and done? Nope. (for now but I am working on that) Cheaper to find you another supercharger and swap rotors, yes at this given time.
Magnuson does NOT recoat rotors. When they rebuild them, they do NOT reuse, or even rebuild rotors. They always install NEW rotor assemblies each and every time. They throw the old rotors in a recycling bin and call it a day. I know this for a fact, as I talk with them quite frequently about...stuff.
~F~