Made a new account just to throw some thanks at Tekkitopotamus; who because of his work, my server finally works once again . Ive only tested the advanced machines error which is fine now, haven't touched railcraft yet but I'll get to it when i get the time. Thanks though man!
Edit: What am I saying, thanks everyone here for helping and troubleshooting. This thread has been insanely useful for narrowing down problems with my server.