base-installer already warns you as follows:

  Proceed with installation to unclean target?

  The target file system contains files from a past installation. These files
  could cause problems with the installation process, and if you proceed,
  some of the existing files may be overwritten.

You are encountering some of these problems. Would further warnings have
made any difference?

-- 
Gutsy Install Does Not Ask for User Id
https://bugs.launchpad.net/bugs/178494
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