Q. Do I need to file an amendment for our taxes?
A. It depends on the bottom line, on your tax return. Assuming you are eligible for the tuition credit (your income is not too high), you should have used $4000 of tuition to claim the American Opportunity credit (getting a $2500 credit, in two pieces, $1000 & $1500). If that's the bottom line, do not amend. All that entry detail is not sent to the IRS.
What your son enters does not have to agree entirely with your entries (other than the $4000, of qualified expenses, used by the parents to claim the credit on their return).
There's a simple way to enter it on his return. Manually calculate the mount of taxable scholarship and enter a 1098-T with 0 in box 1 and the taxable amount in box 5. Enter no other numbers.
The simple way to enter it on your return would have been to enter a 1098-T with $4000 in box 1 and 0 in box 5. Enter no other numbers.
Q. He does have to file since he had over $12,000 from working during the year. Correct?
A. The filing threshold is $14,600. So, it depends on how far over $12,000 he is. $12,000 wages + $2300 taxable scholarship = $14,300. Even if less, he should file, to document the use of the "loop hole" ( I assume that's why he "had to use some of his scholarship to pay for room and board".
