I say like the others, start a new character. That's what people usually do whrn they want to do quests again - or try a different playstyle. Or another RP.
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If you have the civil war overhaul I think you have, it's recommended by the modder to start a new character just for the CW playthrough, IIRC. He practically had to work against the rest of the game to complete it, so if you mix it with a lot of other quests and questlines, on an old character, you are likely to screw something up.
Console commands to force quests to complete or become undone seems like a pretty sure way to screw up things as well. Better to save a lot and revert to an older save if you run into bugs.