Pretty much every popular song will be labeled overrated, but for me it would:
Metropolis- Oh yes I went there.
Obviously not a bad song by any means, but never completely comes together for me. Always felt like a good song surrounded by a bunch of great songs on I&W, but I guess plenty of others disagree.
A Change of Seasons- I don't have any specific complaints against it except that of all of DT's epics this one feels it's length the, even Six Degrees which has more variety to compensate. Granted it does have some of the best moments of high-quality lyrics and LaBrie's vocals in the band's catalogue, but the song doesn't maintain my interest level like say ITPOE or TCOT which fly by.
and maybe In The Name of God, if only because some people seem to short-change the rest of ToT when it's regarded as the standout track.