I started out with stubbies, but I switched to longies after not very long due to impatience more than anything else- while I always had friends to help bottle, making a bottling session quite quick, longies meant half as much washing. Bulk priming also helped with the reduction in work on the day.
I now use big 19L cans (also known as kegs), but when I need to bottle from the keg (I don't bottle batches any more) I use longies because I am:
1- taking a bottle to an adelaide brewclub meeting and there needs to be enough to share around
2- I'm bottling for competition entry, and they always need a longie
3- I'm going to a party, however for that I use a 1.5L grolsch bottle or my 2L Asahi can. That can has gotten me through some good times.
Anyway, after that little tangent, umm, I recommend longies? I personally haven't seen any flavour differences (this is with batches that had not quite enough for a longie left at the end and I used a stubbie), so it's really up to:
1- how much beer you drink at a time. If you find yourself grabbing a second stubbie all the time (which I did), then longies would be a great idea. Conversely if you are constantly pouring out a good portion of a longie because you don't feel like having any more, then stubbies.
2- how lazy you want to be when it comes to bottling. Some people here have collected champagne bottles, and I'm sure at some point the photo of all the 2L aldi coke bottles will show up here eventually.