That depends on your tastes.
Do you want a traditional Harvest Moon, where you'll have to just farm, woo a girl (or a boy in girl version), and just start a family? Or would you like a Harvest Moon where you can use swords, fight monsters, woo a girl, farm, and get married?
Harvest Moon DS and DS cute is pretty much very similar to the rest of the Harvest Moon, although I would suggest DS Cute since most bugs and glitches has been fixed.
Grand Bazaar is different. Instead of shipping items using a Shipping Bin, every Saturday, you get to be able to participate in a Bazaar, where you can sell the things you harvest, found, caught, etc.
As for Rune Factory... 1, 2, 3, and Frontier have their own story lines, with the exception of 1 and Frontier (they're pretty much sequels of each other).
1, you play Raguna, and you can have 1 child who will remain forever a baby. It will always be a boy.
2, you play as Kyle. In the middle of the game, end of the 1st Generation, he will leave, and you get to play as his daughter or son in second generation.
3, you play as Micah, a half monster half human. You can have him transform into a monster. He can have 3 kids in total, although you can't play them.