can i be denied visa if out of fault?

the embassy sent a letter to my universities liaison office asking them to send the list of students who have applied from their office.and told them not to send any more children as they wont entertain anyone after this.the liaison office did as asked.there was a mistake and they wrote my name in the students who wont be applying for the visa.
next week two students from the same office were rejected visa on the basis of late application.
Because it was the fault of the liaison office in my case,the university gave me and option to come and study during the summer semester without having to reapply which dusnt happen very often and only 35 students will be going at that time.they will even be saving my room for which i have already paid.
now the problem is that i still want to take a chance and apply on january 2nd.my father is acquainted with someone in the visa office and was advised to take a chance and apply for the visa.
im worried that i may be denied visa like the other two students.should i apply for visa in may or take a chance this time?
if i am denied visa in january,is it possible that my acceptance chances in may will be narrowed?
i have been given scholarship but i havent paid the fee for first year yet.
any help would be great.