Ok ... is the missing amount of refund from the state ?   If so check the state web site to see when that refund will be released ...

To track your state refund:    

https://ttlc.intuit.com/questions/1899433-how-do-i-track-my-state-refund

And sorry but there is no refunding of the Online fees once you have filed, the program was free to use up until you wanted to print/file the return... then the TT fee had to be paid.