What can I do to make my apartment smell good?

Ok, I live in a 2 bedroom 1 bath apartment with my room mate and we have 2 dogs. One of them is mine which is potty trained but the other is a new puppy which isn't potty trained. The apartment is starting to smell bad and I don't know what to do about it. I work 6 days a week and when I come home and walk through the door I get that first whiff of bad smell and it is starting to drive me crazy. I don't like using the spary air freshners because it makes me sneeze but I'd like some solution to first possibly try and eliminate some or all of the odors and 2. have something that will keep the apartment smelling fresh at all times...what can I do? Also, before we got the new puppy it still smelled bad so its not all because of the pup. Our garbage disposal smelled like throw up from the second we got there and I've tried everything to try and get that to smell good. PLEASE! Can someone help me. I'd like to come home from work someday and not feel like I have to clean so it can smell good.