It depends.
Were your required to mail Form 8962 to the IRS?
If so, the processing centers are closed at the moment due to the social distancing requirements currently in place. However the IRS has some operations open as needed.
Please see the attached link for IRS operations. You may be able to try to contact the IRS Taxpayer Advocate Service department for assistance.
IRS operations
If you were supposed to get a refund, you can use the link below to track it.
Where's my refund
In regards to the bonus, what do you mean by they're "taking the bonus out of our taxes"? Do you mean they are assessing additional taxes on it? Did you report it on your return?
All income and withholdings should have been reported on the return you filed. If they are assessing additional taxes, it is possible not enough money was withheld from his bonus income.
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