I like Colt, believe they put out a quality product, and am not trying to bash Colt. Both of my AR's have Colt uppers. One is a 6520, and has the M4 feedramps done after anodizing.
But, this seems to be more than just one or two occurances and rifles/uppers with this trait seem to have come from more than one source, so I do not believe some unscrupulous vendor is behind it. I also recognize the demand for these LE/Mil rifles and do not find it unbelievable that any company would use whatever they have on hand in order to meet that demand, even Colt.
That said, I don't think these are defective uppers in any way, they were just modified to the new standard (M4) a little late in the assembly process.
BTW, my 6520 upper with un-anodized M4 feedramp cuts is running fine after a fair bit of use with no discernable wear to the feedramp cuts in the receiver.