Updating an OS that has existing problems rarely fixes those problems. In fact, often that just makes things worse. (Basically, this is because the existing OS itself is doing the update, so if that OS instance has problems it is not uncommon for those problems to interfere with the process.)
There are essentially an infinite number of possible login items, so it is impossible to list the incompatible ones. Typically, any that come from Apple are safe. It is usually easier to go to System Preferences > Accounts > Login Items pane & list any that seem suspicious here in a post, leaving out any that are obviously from Apple (like iTunesHelper). Some other user most likely can tell you if they are safe or not.
However, since login items are just one of many things in a user folder that can cause this kind of problem, it is best to start by creating a temporary new user account, logging out of your normal one & into that, & seeing if the problems go away. If not, you know the problem is systemic & not localized to one user.