I love Skyrim, but I love a lot of RPG's, in fact that's why I haven't been on here a lot right now, I just got a PS4 and have been playing the heck out of Skyrim right now...
As far as the civil war in the game, it's a very, very difficult decision if you choose to play that questline, and with which side you choose, they clearly tried to make this Talos, Tiber Septim character a likeness of Christ in our world, but it wouldn't be such a hard decision if it weren't for some major differences though, this Tiber Septim/Talos character never claimed to be God or a god for one thing, and there are other differences as well, that if it was supposed to be like Jesus in this life, should tip those scales drastically in a "certain direction", IMO...
But as for the game, that part is maybe one of the hardest decisions in the game, (the civil war quests) and I still haven't chose a side in it yet...
You don't have to rely on magic and be a mage either, my character is a warrior mainly, but I also don't think there would be anything wrong with it if you did either...
There are a lot of difficult, controversial decisions in the game, and that's part of the reason I like it so much, and I like the storyline a lot also...
But it's no different than reading a science fiction of fantasy novel, or watching a show or movie involving such either, it's not "real" IOW's, and if you start thinking it can be kind of real, or can be like real life or is real like real life, is where and when it can become a problem I think, but it's not, etc...
Sure they try to make it, and the situations in them, like real life, but in the end it's not real life, and as long as you know the difference, I don't think there is anything wrong with any of it, only when those lines can become blurred is when and where it can become a problem, etc...
Gonna go back to playing it right now. I just built my first house and completely finished it, and with a certain combination of skills I chose, my character is leveling up like crazy, and becoming very powerful right now, and I love building up my characters in RPG's to the max if I can, and I've almost got my character in Skyrim there, with a combination of alchemy, speech, smithing and enchanting Skills, I basically got unlimited gold or stuff to trade, and almost got each of them, or those skills up to 100, with most of the perks, at which point my equipment and my characters strength and power as a warrior will be at the max, then I'm going to finish some quests and do a lot more questing, instead of just building up my character, and my gold, etc...
Still don't know how I'm going to choose in some of those quests right now though yet...? like I said they did make that part challenging and on purpose they did that, part of the fun of it for me...
But it's not "real", etc...
God Bless!