As far as I remember, visual lane aligment issue is from vanilla, it's just more visible with coloured bus stops.

Well, the point was that its not just visual. Non-bus vehicles ignore the improved AI at the glitched alignment positions, and from there on ignore any vehicle restrictions. Only found this to happen with the Bus lane avenues.

The vehicles you see in the second picture stepped onto a bus lane earlier along this road (before the roundabout even)

Regarding visuals, there was a misalignment in vanilla, as Lexus said, and I adapted my textures to reduce it.
However, the latest patch (1.1.1) fixed them and now my textures are the ones out of alignment.

Regarding vehicles using bus lanes, I don't understand how that could happen without manually editing them to allow other types of vehicles. The misalignment in textures should have nothing to do with it since it's nothing more than a visual "bug".

The visual alignment doesnt bother me too much though. Just started noticing vehicles driving on my bus lanes.

Managed to pin it down to mid road intersection nodes with a glitched graphic. Vehicles follow normal behaviour, but at those intersection nodes they would just hop onto the bus lane. Will try to get a movie of it (have set all those nodes to straight on only manually, so will have to undo one and demonstrate)

In the following clip youll occasionally see a vehicle choosing to go onto the bus lane. If I remove all manual directions on this long avenue there will be as much traffic on the bus lane as on the main lane.

Right at the 1 minute mark theres a clear transition.

http://youtu.be/ZwZXLnBx3w0

That's really weird. Can you send me your save so I can investigate?

https://drive.google.com/file/d/0B5W7g9ZUM0sLZHd4SXV6a2tjWDg/view?usp=sharing

Using the following mods, probably wont work without the first few:
- Traffic++ (loving it!)
- Traffic manager
- Proper Hardness (normal difficulty, vehicles still despawning

Assets (can probably find it by looking at what Im subscribed to
- 3 lane Metro, 2 lane metro, 2 lane metro + pattern
- Old brick station M1,M2,M3
- Flatlands 2.5 Map
- 4 Platform CR train station
- Rural Station
- Suburban Rail station

No mods that affect road traffic apart from the first 2.

- Dark roads color correction
- Bright and clear color correction

Make sure to remove the forced straight settings on that long avenue to reproduce the behaviour