It sounds like your beef is with the employer, not the IRS.
The IRS knew your return was inaccurate when you submitted it. And it sounds like it was off by enough to trigger statutory penalties, which was appropriate based on the facts provided.
Yes, it sucks that your employer gave you the wrong statement, but there's nothing the IRS can do about it. Your employer had a legal obligation to give you the corrected statement when they filed a correction with the IRS, and if they did not your recourse is to go after your employer to make you whole for the penalties and interest owed. The IRS is not in the business of determining who is telling the truth about not receiving legally required documents.
Why can't the literal authority on the matter tell you first?
Because Intuit and HRBlock spend a lot of money preventing the IRS from implementing that sort of system. The IRS has proposed an EZ-file system like they have in Australia or in the EU many times, and has been shot down every time.