The IRS poses certain tests to determine whether one is an employee or an independent contractor. If you're an employee, the employer is required to withhold payroll taxes and FICA from your paychecks. The employer must also pay payroll taxes to the federal and state, and there are severe penalties for not doing so. If you're an independent contractor, you generally receive your gross amount and pay your own taxes; in most cases you have to pay estimated taxes quarterly so that you're not hit once a year with a huge payable you can't afford. So if you were truly hired as an employee, it sounds like you were scammed.
I'm not following everything from your first post, D., but as you may remember from when we last talked, I work for a firm specializing in accounting and payroll software. We have several accountants on staff who have an intimate knowledge of payroll law. So if you want to provide me more information either here on the board or by PM, I can try to advise you further.