And still I don't agree with moving the bug report from glib2.0 to
cmake.

Debian also has multiarch support:
http://wiki.debian.org/Multiarch
But it was made more carefully in Debian.

You can see duplicates of this bug to observe packages affected by this issue.
Both packages (eiskaltdcpp and sciteproj) have no problem with builds in Debian.

As I wrote above file glibconfig.h in Debian placed in 
/usr/lib/glib-2.0/include/ directory:
http://packages.debian.org/sid/i386/libglib2.0-dev/filelist

I inspected this file and I didn't find platform-specific code.

Package in Ubuntu Oneiric has version 2.28.6-0ubuntu1 and it differ from the 
2.28.6-1 version of this package in Debian Sid:
https://launchpad.net/ubuntu/+source/glib2.0
http://packages.debian.org/sid/libglib2.0-dev

Why don't you want just to sync your package with the package in Debian?
What's the profit from this incompatibility?

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https://bugs.launchpad.net/bugs/751940

Title:
  Problem with cmake module FindGTK2.cmake in Ubuntu >= 11.04 (Natty
  Narwhal)

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