Right off the top of my head:

"This Monkey's Gone to Heaven" by Pixies
"Shock the Monkey" by Peter Gabriel

I'm sure I'll have more soon. I love monkeys! This is gonna be a great mix CD!!

Hey Hey We're the Monkeys (Monkeys Theme)

Too obvious??? :-)

"Guarded by Monkeys" by Cracker

"Monkey vs. Robot" by James Kochalka Superstar. A classic in its field.

And they might not be monkeys as such, but They Might Be Giants has an entire sequence of songs about each Planet of the Apes films as secret tracks on Severe Tire Damage.

"Monkey" by George Michael.

Monkey Man by the Rolling Stones

And due to many damaged brain cells I don't know exact titles but Smokey Robinson has a song something like Mikes Monkey???

And I think maybe the Counting Crows have a monkey song too, or maybe they actually are monkeys...I can't recall. ;)

Pop Goes the Weasel - Traditional

Ok so the monkey is in the alternate verses but this is the first thing that popped (heh heh) into my head.

And look at all the verses:

http://en.wikipedia.org/wiki/Pop_Goes_the_Weasel

My favorite:

Ev'ry night, when I come home,
The monkey's on the table.
I take a stick and knock him off,
Pop! goes the weasel.

Also I highly recommend looking for a file of Bill Murray calling Vigi a Bad Monkey from ghostbusters two!

"Monkey Man" by Toots and the Maytals, covered by the Specials and coutless others.

Monkeys ahoy!

"Monkey Man" by Toots and the Maytals, covered by the Specials and coutless others.

Monkeys ahoy!

What about "Monkey Wrench" by the Foo Fighters? (I think that's the title.)

Gotta have some Beatles too, right? How's about "Everybody's Got Something To Hide Except For Me And My Monkey"? Classic!