There are no flies in my house whatsoever, so I don't have to worry about them. But when I want to keep the smell contained on some foods, I can place them on a paper plate (or a normal plate would work I guess) and then put it in a normal plastic grocery store bag, then tie the handles together in a quick, tight knot that makes the bag balloon out. As long as there are no rips or holes in the bag, it's actually quite effectively makes an air-tight seal while still giving the food plenty of it's own air supply. That should work with keeping the flies off, too.. and the plastic never has to touch the food.
As for warming things, I actually can't keep any of my food in the fridge or else my dad will find out I'm eating raw meat and freak out. I keep all of my food in my room, I just bought a cooler, so that I'll be able to keep my foods longer, but I typically eat any meat I buy within 3 days without keeping it cool at all. However, if I had a lot more meat and could keep it in the fridge, then I would just pull out everything I was going to eat the next day to let it warm up overnight. With eggs, I always sneak a bunch of them to my room to let them warm up before I eat them, even leaving some in my room for two days before eating them. Just try to plan ahead--don't pull out the foods to let them warm up once you're hungry, pull them out before you get hungry so that they're warm by the time you want to eat. I don't much like any of my foods cold, especially fats which I prefer when warmer, actually I think I might even prefer the taste of it when it's cooked than raw or cold. But of course, I can't eat it cooked, so I just go for as warm as I can get.
