I don't think there is a problem with a partially stocked store as long as you make it very clear that things take time for you to make -- to appease people you could take pictures of your items as you're working on them. You could also include pictures of items you have sold (just as examples).
I think people generally understand that you're working - as long as you're forthcoming on your website and you have other content, then it won't be an issue. Plus, it's going to take for you to "get your site out there" and that could give you time to work on your products
Also, if you have friends that also make stuff, maybe they would be interested in listing some of their products on your site? That could give you some filler items