I was very happy with Window World (
http://www.windowworldusa.com) - a franchised chain, so your results may vary. Replaced all the windows in my house about 4 years ago. Had almost all of them done with the disappearing "slide and hide" screens, which is an awesome thing if you have any kind of view.
The local Window World (SoCal) did a great job on the install; their crew banged it out in 2 days. So far no leaks or issues with the Canadian made "Irwin" windows.
One thing I will tell you - negotiate the price heavily. All the window companies quote very high but will come way down to get the job.
It was expensive to do the entire house but we have been really happy with the decision and consider it money well spent. The energy and noise reduction are significant.
Good luck!