Yeah. Despite being stated to being made in Ganon's image, Moblins are no longer Ganon-connected enemies. So their appearance has nothing to do with Ganon, not necessarily anyway.You are inccorect. Moblins were in MC, but Vaati was the Main Boss in it where as Ganon did not even have a cameo.
Skyward Sword definitely predates Ocarina of Time by a long time. Ganondorf was born prior to OoT, but in terms of human years, meaning this game will predate his birth. There's no direct way Ganon can appear in this game. The only way he'll come back is through outlandish means like time travel or an ancestor.