Some great work here, I know this area very well and have just returned from 2 weeks in this locality.
Is the route for TRS2004?
Have you included the East London line at the back of New Cross or do you intend to add the Overground? Looks like you could use a Networker, how about using some of the prototypical first generation EMUs available instead of the class 313s? The 3rd rail at platform A needs swapping over so it is away from the platform face.
Are you building Lewisham station? This would be a good one to include with the variety of freights that can be seen there also.
Have a look at my tarmac platform range on the DLS, I think it would work very well on your route and allow you to build akward curving stations like Lewisham (although part is prefabbed).