Is it okay to delete assets to reupload 'fixed' versions?

I just had an awful discovery — for years, I've been uploading my files wrong. I make isolated black content on white/no background, so I was uploading them in batches of three: svg, eps (with white bg) and png. To cover all the fronts. 

Recently I started seeing all pngs being rejected for being similar content, that similar content being my own images I just uploaded as svg, probably. So I started reading this forum and the guidelines and realized I was probably doing it all wrong, and now I have vectors with white background and pngs without bg sold separately. And for new batches I don't even have PNGs and can't 'offer' transparent background ones, since EPS has a white bg... 

Yes it's all completely my fault and I messed up, but that got me thinking: should I delete all the 'wrong' files and reupload them as proper background-less vectors from scratch? Will it work? And will it hurt my account in general, deleting dozens or maybe hundreds of images? 

And just so there's no confusion on my end again:  Is it enough to just upload one format (svg  or eps) with no background for people to use? I would ditch eps altogether but the things I do are isolated signs (lettering, calligraphy), so without any outer borders it all looks really wonky. 

Thank you