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First, employee's do not pay employment taxes period. Employers pay employment taxes.
Second, you guys are mixing two separate issues. One issue is whether someone is a W-2 or 1099 employee. This is a tax issue that is the type of thing that concerns the IRS and department of revenue. The other issue is if they have an unemployment claim or not. To have a claim someone has to show up on someones report ( in Indiana it is to the Department of Workforce Development) as an employee. If you do not show up as an employee you cannot collect period. Even if the guy had been an employee if you only paid $3,000 the amount he could collect off of your account would be small.
An employer's failure to properly file forms and pay taxes does not disqualify an employee for unemployment. It just opens the employer up for all kinds of hurt.