Just to clear this up, AVENUE Q opened in July 2003 to mostly favourable reviews. WICKED opened in October to mixed and many unfavourable reviews.
IF the Tony had not gone to AVE Q it would most likely have gone to CAROLINE. WICKED was probably third choice. Only BOY FROM OZ seemed less likely to get the Tony as Best Musical.
Most people predicting the Tonys picked Q that year.
AVE Q also won Best Book, and Best Score. (Sometimes a show wins Best Book and Best Score but a different show is named Best Musical. But not often.)
So it had the critics behind it. The Broadway community was behind it. The campaign "Vote Your Heart" helped a bit as did the road presenters who saw it as a low-cost show to tour (as opposed to the very expensive WICKED.) So all these factors came together and ensured a Tony win.
In the end it doesn’t matter. AVENUE Q continues to thrive now in its 3rd year. WICKED continues to sell well and attract new audiences, though I do get concerned when someone sees it, likes it and keeps going back to see it over and over instead of seeing other shows that they might like even more. Then even though it is one of the very few shows they have seen they come here and start threads like "WIKKED IS THE BEZZZT SHOW EVAH!!!" The shear number of new threads this one show generates each day becomes nauseating and turns casual fans against it and they start posting comments like "WICKED sucks." Well, it doesn't suck but it also is far from being one of the best shows on Broadway.
Cast albums are NOT "soundtracks."
Live theatre does not use a "soundtrack." If it did, it wouldn't be live theatre!
I host a weekly one-hour radio program featuring cast album selections as well as songs by cabaret, jazz and theatre artists. The program, FRONT ROW CENTRE is heard Sundays 9 to 10 am and also Saturdays from 8 to 9 am (eastern times) on www.proudfm.com