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Sierra was just so great, particularly their Impressions Games group. Lords of the Realm, Civil War Generals, Caesar, the Dr Brain games

Sierra even published Half-Life

The Caesar series was my favorite growing up. And the other city-building games that followed, like Zeus, Pharaoh, and Emperor.

There have been a handful of indie games lately doing things in the same style, but nothing that seems quite polished enough yet.

They also published Homeworld. I've yet to find a comparable - let alone superior - 3D space RTS.