The problem sounds like it is caused because your old skin does not have all the needed things.
Did you update your skin with changes documented in the Important Skin Changes document? Make usre you apply all the changes mentioned since your previous version.
Have you copied the new skins from /Data/skins to /Data/Sites/[SiteID]/skins and then try one of them to make sure the problem is only skin related? ie I think you will find the problem is only happening with your older skin becaus eit is missing needed things like colorbox css as mentioned in the linked article.