Reset / play again all the quests, just means youre staring the game again. MQ lines cannot be reset / play again without problems and/or alot of work, because quests depends on other quests and they have to be reset as well. I would not use such mod, one bug / script error and whole game could be messy. In Tes, I usual start the game again from scratch if there are some mods / official patches or something that fix things or I did not like the progress. FO 4 I will never ever start the game again and/or redo any quests - bugged or not because I spend way to much time to gather items and make settlements. I would not do all the MM quests again or gather all the companions / named hireable traders. I have the junkyard dogs in 10 of the settlements and it was a pain just to get the first dog. Alot depends on luck and random stuffs in FO 4.
Beside, at high level som quests too easy to be rerun. If this was a case where you could rerun quests, npc have to level up with player. The best way to do all the quests available, inclusive MQ lines. Do less MQ as possible, do MM, join RR and BoS and then do a special savegame where you have the options to continue different ways. There is a point where you can be friends with all factions at the same time, but next MQ lines do tell what faction to follow and what faction have to die.