I had the same problem with my unstable AMD64 system - sbcl & common-lisp-controller would not successfully configure, because of the "GC invariant lost" error. I downgraded to libc6, libc6-dev, libc6-i386, and libc6-dev-i386 versions 2.7-8 using snapshot.debian.net. Both sbcl and common-lisp-controller are now able to configure without errors.
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