Unless your VG itself was contaminated, I don't really see how a bit of VG being in there is a problem. Think about it. If every time you added nic to VG it caused contamination, well, we would actually be unable to make flavors.
As others have said, it's probably just oxidization, and the reason why most DIY will freeze large quantities of nicotine to halt the oxidation process, and keep a smaller amount in the refrigerator for mixing. If it's in a light colored bottle, or hot conditions, it will darken.
If it doesn't taste horrible, have things floating in it or otherwise turning VERY odd colors like bright red, it's probably fine. If you have a tolerance for somewhat oxidized nic, I don't see any reason for you not to use it, but maybe store it in the fridge from now on so you aren't exposing it to further light and heat. And read up on storage of nicotine so you know what to do with the next batch you purchase.
Good luck,
Anna