The Ed Wood soundtrack is the only Burton one without Elfman, but its pretty good too. I guess he figured Elfman wouldn't capture the cheezy 50's horror sound with the theramin and all.
I dunno. IMHO Gene Wilder brought a definite unnerving edge to the '71 film, and if you get past the gooey music, there's a sense that Willy Wonka's world is hell as a candy factory.