Deductions & credits

I have a similar issue with form 8889-T.  The total contribution amount to my HSA shows on my W2, Box 12c, CodeW, but in reality, I contributed a portion ($3,000), and my employer contributed a portion ($1,000).  Form 8889 pulls in the total of $4,000 as all employer contribution.  This causes my state tax to incorrectly increase my income by an $3,000.  I put in a manual override to line 9 to show my employer contribution of $1,000.  TurboTax will not let me e-file because of this.  Can TurboTax fix this?