Do we? My impression was that strings, woodwinds, choirs instinctively tend to use just intonation, and Wikipedia entries for both just intonation [1] and equal temperament [2] seem to back that up. That's why symphony orchestra players will often have a different flute, clarinet, or oboe for different tunings. It's just fretted instruments like guitars that are by nature equal-tempered.
On a side note, both Wikipedia entries reinforce my original point that the mathematics of this is fascinating.
Not just fretted instruments, pianos as well. Anything which lacks ability to adjust tuning on its own, while being played (things that wind instrumenst and non-fretted strings can do), for example a steel pan drum, would be equally tempered (assuming you want to be able to play in all possible keys).
>That's why symphony orchestra players will often have a different flute, clarinet, or oboe for different tunings. Not sure what you are referring to here? Clarinets don't come in different "tunings" unless you mean different keys - like Eb or Bb clarinet, but those aren't there for intonation, they play in different ranges of pitch than one another.
Edit: in addition, you don't HAVE to equally temper a guitar. You can choose just intonation. The problem is that you can only have just intonation on a single KEY for that instrument. So if you tune justly to C major, a key like B major, will sound horrendous!