It's generally not a good idea to add priming sugar directly to the bottles. This increases the chance that you'll have different amounts of sugar in each bottle, leading to undercarbed bottles or even bottle bombs.
If you have a bottling bucket (and if not, go get one, they are cheap) you can just boil a cup of water with all your priming sugar. Mix well, boil to sanitize, and then pour it into the bucket. Rack your beer on top of that to mix, then bottle. If you don't, you can pour this mix directly into your fermentor and stir well to mix it, but this increases the risk of oxygenation which can result in off flavors.
Hope that helped.
Edited: How much priming sugar are you planning on using? 1/4 cup in any bottle seems like way too much to me.