Complicated Job

I live in NYC, and my job situation is a bit complicated. Last year, my employer had to go through restructuring and so they couldn’t afford to have me as a full time employee so they reduced my hours. But, in addition to those hours, I did other work for them as a self employed contractor through another business. During the time I received benefits, I never reported that ‘second job.’ But I still reported the overall income I received. I just reported it under my initial employer. On my taxes, my income is separated between both my employer and the contract work. I am now filling out my periodic report. Will this cause any issues for me? I swear I wasn’t even trying to commit fraud, but all this stuff is just so hard to manage and understand