What version of Sonar are you using (I sometimes get this when I open a very old Sonar project), and what do you use for a new project startup, a preset template ?
I'm just wondering if you're "Normal" start up template could be adjusted to get rid of the extra bars, then you wouldn't have it in any newer projects.
Also, have you checked the Event View to see if there is some stray data on a track, (maybe even a hidden track) in your project, for example at bar 300 ?