To be honest, I couldn't really find another game that I would declare "overrated" or anything, so I just went with Musashi just so I had something to call overrated. Now that you mention it, though, it actually is over-hyped and not overrated, I suppose.
The problem I see with Ocarina of Time is that, while it excels at doing some things (and remains an enjoyable game to this day), it also has several design flaws which people tend to overlook and instead magnify the good in the game to ridiculous proportions. But I can forgive that, due to the many amazing, deep, thought-provoking and entirely philosophical and scientific, not to mention fantastic, quirks the game has.