A concur that a bent extractor rod or center pin is the most likely cause of that problem. A bent arbor (the part of the crane that holds the cylinder) will be easily detectable when the open cylinder is spun.
I don't recommend the practice, but IMHO the concern about flicking the cylinder closed has been vastly overblown. I once spent the better part of a day doing that repeatedly with an M&P (pre Model 10) S&W revolver and never caused any detectable damage to the gun. (My wrist was sore for a week, though.)
Jim
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