"Unorganised" would imply that it is *not at all organised*, which is probably not true - transport networks have a great deal of structure and organisation. You appear to be making a comment on the *quality* of its organisation rather than a complete absence of it.

What I think you mean to say is that it is '**disorganised**', meaning "badly planned and without order". You could also say it is '*badly organised*', '*poorly run*', or perhaps '*mismanaged*'.