Retirement tax questions

I am sure TT will delete this.  TT is showing I owe $1,578 to the State of Mississippi after I entered my 1099-R.  I just spend most of the day using H&R block online tax prep and it shows me getting $501 back from the State of Mississippi after entering my 1099-R.  There is defiantly something wrong with TT.  H&R block did not apply state income tax, they followed MS state law.  I hate to say this, I am leaving TT after using them for the last 9 years.