Why would it be necessary to play Trick The Computer here, if the 1099 has the EIN for the entity that should be reporting the income?  IRS doesn't match names, it matches EIN's to returns.  And it knows that EIN belongs to an S Corp.  If anything, IRS will send a letter to the payor, telling them that the EIN and name don't match.  So yes, notify the payor of the problem, to correct it for next year.