Run it with the undocumented switch -minimizetotray and the option is available in the options menu.
I don't know how to fix it. It's something wrong deep inside wxWidgets or GTK or Gnome.
BitcoinTalk
Re: 0.3.1 release candidate, please test
From:
satoshi
Subject:
Re: 0.3.1 release candidate, please test
Date: