Sure you can save them!
Save them just as you would any game, with the menu command. To resume, you click on the type of game line in the upper left panel of the lobby screen. A pop up menu appears. Select Load Saved Game (or something close to that. You can then select games from your save folder, just as if you had selected 'Load Game' on the Single Player main menu.
As a practical consideration, given the instablility of SMAC IP, saving frequently is a VERY GOOD IDEA. Do not use the Iron Man setting. If you do so, whenever the game is saved, everybody gets dropped and the program terminates.
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