Several things are installing icons in the wrong location per FDO.
/usr/share/icons/ecrire.png /usr/share/icons/edi.png /usr/share/icons/elementary.png /usr/share/icons/equate.png /usr/share/icons/rage.png /usr/share/icons/terminology.png /usr/share/icons/verne.svg
Looking at FDO Icon Theme Spec, this seems to be incorrect.
Per the FDO Icon Theme Spec, taken out of the first couple paragraphs.
"By default, apps should look in $HOME/.icons (for backwards compatibility), in $XDG_DATA_DIRS/icons and in /usr/share/pixmaps (in that order). "
"In each of these directories themes are stored as subdirectories. "
"In order to have a place for third party applications to install their icons there should always exist a theme called "hicolor""
Basically to me that says, icons should not be in /usr/share/icons, but a subdir with the icon theme name. For icons that do not belong to any one theme. They should be installed in the hicolor theme, in the respective size/category directory.
Other things need to be corrected as well.