Cysts after IUI


so we got the news that our first <a href="">iui</a> didn’t work and she thinks it’s because my lining was too thin (5.8) and now I went for an ultrasound yesterday and have cysts now (2.3 and 3) it was only day 3 so I pushed to go back day 5 just in case they are gone, my question is.. if they are NOT gone and we do the <a href="">IUI</a> with my natural cycle can the cysts negatively effect my new follicle? My husband is worried