Sort of. SPY still invests in the S&P like it always has. Getting entry into the S&P 500 always had some rules [1], this is just one more.
[1] http://www.investopedia.com/articles/investing/090414/sp-500...
FWIW, I don't think that concern applies here, because it's a judgment about share uniformity, not performance.
It's irrelevant that "hey, I'm just following the index", since the index is inheriting an active manager's judgment. The more such judgment is exerted, the more the index becomes someone's active management. At some point, it is not really an index fund (as properly understood), but an actively managed fund (albeit low-cost).
The OP's concern, then, was that making this kind of decision about "man, these multi-share stocks are too nutty" is getting close to looking like active management rather than some robotic, mindless tracking of some mostly-objective market measure.