I am thinking you should be able to replace just the glass. I had a Honda Accord where you could take the glass off and re-attached a new glass on the powered arm in the assembly.
What I did was call up my Honda parts source and ask, then I ordered from them. It was from Page Auto. They also have a Toyota dealership. You can go on-line and ask about the parts, they will e-mail you back or you can call them.
http://www.pageauto.com/metoparts.htm
1-800-338-5538
Or go to your local Dealership or where you buy Toyota parts. My bet is the glass can be replaced without replacing the whole assembly. (Well at least 95% sure.
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2001 & 2004 Toyota 4Runner SR5 4X2
Both V6 and both Natural White
"Yeah, I like white and I like 4Runners"