I noticed that the Warriors Guild and Thieves Guild seem to conflict with each other. I understand I can probably just kill certain NPCs to get around this, but I'd rather not kill anyone unless I absolutely have to. My example here is Sottilde and her code book.

What I'm getting at is if there is a suggested order to join and complete each guild's quests? I'm planning to leave the Thieves Guild's quests after I finish the other two, unless suggested otherwise.

And, is there anything I should know about the other factions possibly interfering with each others quests?

I'd read ahead in the various guides out there but I'm trying to avoid spoilers. :pinch:

Join the Fighters Guild in Balmora.

Do their (i.e. Fire-Eyes) quests and get the code book.

Join the Thieves Guild while you still have the code book.

Turn the code book in to Fire-Eyes.

I never killed Sottile. I bribed her and she gave me the book. In the Fighter Guild I only had to kill the Orc in Balmora (got a bounty) and the spy agents in Caldera. I also try not to kill when not really necessary. Of course at the end we have to kill Fire-Eyes and the Orc in Vivec as they belong to the Camora. If you are not sure, talk to the guild master in Ald'Ruhn. Sorry for the Thieves Guild, I never joined it nor the Camora. My character wants to stay clean... At the moment he is doing quests for the Oracle.