Actually, this seems to be a more general issue, maybe related to 
control/unicode characters. Here's another way to reproduce:
1) open a file consisting entirely of IRC colour codes and blocks such as: 
x04█x04█x10▒x10▒x10▒x10▒x10... (where x = ASCII character 3)
2) replace all instances of "10" with "03"
3) mousepad replaces all instances of "10" with "1003".

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https://bugs.launchpad.net/bugs/908512

Title:
  Character U+2591 LIGHT SHADE breaks search and replace

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