I have Vista and havent experienced this, but then again Im using FFXP RC3 however even though this setting is enabled on FFXP for me try and disable it on yours.
GOTO Options>Preferences>Display>Options>(uncheck) Place on system tray when minimised
I recon that is it but hey I dunno. Just a wild guess even if the wrong one...
But like Bigstar says a FFXP update to latest version is definetly recommended since it has fixed some issues with Vista and some of them were quite and very annoying.
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Regards
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