HSA contribution reporting

On my W2 under gross pay, there is a field that states "Less Cafe 125 HSA (W-Box 12)" for $3000. However, my W2 box 12 code W shows my total HSA contribution to be $3499. There is a $499 difference. Is there a mistake somewhere?

 

In W2 box 12, there is a code C for $166.44. Is this amount already deducted from my W2 box 1 wages? Is this amount subjected to income, social security and medicare tax?

 

Box 12 shows my RSU vested in 2020. Is this amount already included in W2 box 1, 3 and 5?