The article gives an example of Java .class files and .jar files for a binfmt_misc use. Another good example is QEMU user mode emulation. With binfmt_misc, you can detect ARM binaries on x86 PC and automatically use QEMU to run them. This is how Scratchbox is implemented.
Interesting article! lwn.net always has great stuff.
Related:
> Linux x86 Program Start Up - or - How the heck do we get to main()?