1. Use the scissors tool to cut at intersections. Then use the profile/merge tool to select each segment. Right click after selecting one and choose save as...
2. It's not called anything, just CSV. The intended purpose is pretty much for usage in Excel, where other calculations can be performed. The coordinates are in WGS84, and in UTM so that distance calculations can be performed.
3. Where are they not lined up? Go to Window->Correct Map offset. You can correct any errors in a single tileset or groups of tilesets here. If you have find a correction for your area, please let us know so we can make it a preset.
Thanks.