Keep in mind that sometimes the browser might be flaky. Send a note with your issues to the RWGPS guys, Zach and Corey. They're pretty good about following up and looking into them. I have been successful editing the routes once saved - either adding/removing course points, adding/removing segments, etc. Sometimes, it's just plain easier to re-draw the route. I've had good success with the Firefox browser on their site.
You can also check their issues list to see what stuff they know about that is on their to-do list.