I've heard the "overshadowed" sentiment before. I've also heard people dismissively say "one building does not make a skyline", perhaps not realizing that the rest of the skyline is in the +200m range.
I've always found the off-centre layout of the skyline aesthetically pleasing: SkyDome, CN Tower, Financial district (low, high, mid). Though, the condo boom has changed this layout quite a bit, putting the CN Tower more in the center. I like Chicago's skyline for the same reason. The Sears and Hancock Towers are like bookends that give the skyline its distinct layout.