Every tool video and the two nin vids linked are awesome.
Two favorites:
Slipknot invited a bunch of fans to a house to trash it while playing Duality:
<object width="425" height="350"><param name="movie" value="http://www.youtube.com/v/gKs4_CPXUqk"></param><param name="wmode" value="transparent"></param><embed src="http://www.youtube.com/v/gKs4_CPXUqk" type="application/x-shockwave-flash" wmode="transparent" width="425" height="350"></embed></object>
Such a fitting video for One by Metallica:
<object width="425" height="350"><param name="movie" value="http://www.youtube.com/v/JwW9L_qzqp8"></param><param name="wmode" value="transparent"></param><embed src="http://www.youtube.com/v/JwW9L_qzqp8" type="application/x-shockwave-flash" wmode="transparent" width="425" height="350"></embed></object>
One of my favorite songs with the video being a take on the Twilight zone episode, Inside Out by Anthrax:
<object width="425" height="350"><param name="movie" value="http://www.youtube.com/v/n-5PXzsQn3A"></param><param name="wmode" value="transparent"></param><embed src="http://www.youtube.com/v/n-5PXzsQn3A" type="application/x-shockwave-flash" wmode="transparent" width="425" height="350"></embed></object>
And just because it's where my avatar came from: Domination by Pantera:
<object width="425" height="350"><param name="movie" value="http://www.youtube.com/v/LTR-tePa0Bg"></param><param name="wmode" value="transparent"></param><embed src="http://www.youtube.com/v/LTR-tePa0Bg" type="application/x-shockwave-flash" wmode="transparent" width="425" height="350"></embed></object>