Apparently the object id of the used "Template look" object has been hardcoded in the ezwebin templates (see extension/ezwebin/design/ezwebin/templates/pagelayout.tpl ):

$pagedesign      = fetch( 'content', 'object', hash( 'object_id', '54' ) )

However, the object id of the "New template look" object in cleandata.sql (mysql) is 55 instead of 54.

This makes a manual installation of eZ publish 3.9.0 with the website interface quite difficult.

Forum topic: http://ez.no/community/forum/install_configuration/override_ini_in_manual_installation