OK - this looks like this is documented behaviour, if a bit unexpected:
-r | -revert
reverse operation: convert (or patch) hexdump into binary. If not writing
to stdout, xxd writes into its output file without truncating it. Use the
combination -r -p to read plain hexadecimal dumps without line number
information and without a particular column layout. Additional Whitespace and
line-breaks are allowed anywhere.
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https://bugs.launchpad.net/bugs/1004700
Title:
xxd doesn't truncate output file
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