Not In 4-4 Time

From This Might Be A Wiki

The following songs do not follow the conventional 4/4 time signature in all or part of the song:

[edit] 3/4

The Famous Polka
Stalk Of Wheat (maybe)
The Bells Are Ringing Only in some parts. The refrain (the lines ending in "-ound") alternates between two measures of 4/4 and one measure of 2/4, similar to the chorus of Thermostat.

It Was A Very Good Year The second bar of the second verse, following a bar of 7/4
Now That I Have Everything During the end (the looped 'Now there's everything/Don't remind me of yesterday" section)
She Was A Hotel Detective The first two lines of each section of the chorus are in 6/4, then it goes back to 4/4: "She was a hotel detective/but now she's better connected..." etc.
Thermostat Beginning in 4/4, Verses in 6/4, Chorus alternating 6/4-4/4. Bridges in 4/4.
Women And Men The verses are in 7/4, then 6/4, then 7/4, then 6/4.
What Is Everyone Staring At? Verse is in 6/4, phrased 4/4 - 2/4.
Sleepwalkers Same as What Is Everyone Staring At?.
The Secret Life Of Six Intro and Refrains in 6/4, rest is 4/4.

Healer's Lament (The "come in to my crystal..." part at least)
Now That I Have Everything I think. The drum track is definitely in some odd time signature (according to the liner notes for Then). I'm pretty sure it's 5/4 or 10/8, though it's hard to tell because the 4/4 part of the song is so damn catchy.

It Was A Very Good Year The first bar of the second verse - apparently to give the singer time to say "the square root of a negative number" in one bar
Sketchy Galore The "he looks down, down, down" section
Women And Men See above.

Pirate Girls Nine Chorus is in 9/8, Verse is in 2/4, Bridge is in 6/8. 8th note stays constant throughout.