This is the easiest and quickest way coming straight from a mom of 2 bottle obsessed girls.
I don't know why you need to boil your water...unless your water is dirty there isn't really a need...but since you do, boil it then store it in a gallon or whatever size pitcher or container. Refrigerate or store it however in the container, it'll save space in your fridge (instead of having X amount of bottles throughout your fridge).
When it comes time to make the bottle, pour the water and microwave it. Mess around with the time until you figure our the right cooking time. If it's too hot, pour out a little and add some of the cold water to cool it down. Pour in the formula powder, shake and serve. You will need to mess around with your microwave to see what time warms up the water to the desired temperature. For ours it's 20 seconds to make an 8 oz bottle but that's with room temp water, for refridgerated I think it's about 35 seconds.
Eventually you will be able to tell the temperature of the formula by feeling the outside of the bottle. It comes as second nature. But always shake the bottle after microwaving to even out any hot spots. You're not supposed to microwave the mixed formula, you can, but supposedly it can ruin some of the vitamins (as in make them disappear or become inactive or something). But it won't RUIN the formula so that it's undrinkable and it won't make her sick if you do (unless you burn it, in that case it's like regular milk and too much heat will make it spoil). And obviously don't microwave the bottle with the nipple & top attached, I know it's common sense but you'd be surprised...
OR
Get a bottle warmer, put a WATER BOTTLE (with your already pre-boiled water or just the water bottle water) in the warmer and leave it on to warm. When it comes time to prepare a bottle, get out the pre-warmed water, mix in formula, shake & serve. Since you boil your own water, it would be a good idea to get a few extra backup water bottles prepared. That way when you use water bottle number 1, you can just pop in number 2 as needed. That way you won't be scrambling in the middle of the night to refill your water bottle and can just do it in the morning when you are more awake. Or of course you can pre pour each baby bottle and after warming & removing the first, just stick the next one in. So when the next feeding comes, the bottle will be warm & ready. And you don't need to use a water bottle, you can use anything really as long as it fits. I've just found that a standard water bottle fits perfectly into almost all bottle warmers.
The same principles apply if you are not a mom who gives your babies warm milk. Only differences would be not using a microwave or bottle warmer. I would suggest leaving the water out of the fridge though so it can be more room temperature...nothing more shocking than getting a cold drink in the middle of the night when all you want is a warm, soothing drink... Just saying, I've always taken the extra 20 seconds to give my girls warm milk. I think it's kind of mean to give them cold ones. Yeah, babies will drink it cold but probably not by choice. That would be like you drinking a warm soda, a lukewarm coffee or cold Hot chocolate. All these drinks are drinkable when at the wrong temperature but definitely not as good as they would be if they were served the way they were meant to...you know?
JMO
Both of these techniques have worked very well for us and are very quick. The only time spent is setting everything up (as in plugging in the bottle warmer, making sure water bottles are near by and putting a can of formula & a bottle next to it). In your case since you boil it'll take a little longer since you'll want your water to cool down first.
She has her bottles warm tho, so I heat up the water in the bottle, then add the powder (it always seems to dissolve better in warm water) and away we go. Takes a couple of minutes to heat up the bottle and that's it 
