What I would like to see is the ability to create specific ships, facilities, and components for a specific race. If this can be done already, will someone please enlighten me

Plus I would like the ability to set certain starting techs to individual races. This way, say the Romulans would get cloaking very early while the Hydrans had fighters. (OK..so I'm a bit of a Trek fanatic)Of course this can be done to some degree by re-arranging the research tree in the Race AI files.
I really like Nyx's idea about having Ruins have more than tech...the advanced ship or race idea is great..kinda like civilization.
Maybe add a few bloopers to it too, like a plague or wild savages which kills off the colonists..hehe.
One more item..not overly important, but I would like a confirmation window when saving a game...basically saying "Do you want to save this game..yes or no". More than once I have inadvertently saved over a different saved game by accident...OK so I have 10 thumbs too. Would be nice to have anyways.