I've always thought these options were buried a bit deep, particularly the ones that you can access only during the upload process.
In the application, I'd like to see two simple checkboxes under Tools, Preferences, Publishing - one labeled, Add to profile page, and the other, Make visible on profile page. As preferences, these would apply to all albums you upload. I think that would take care of it for most users. Obviously, you'd have to be logged in to the application when you do the upload for those options to have any effect.
For per-album variations, perhaps something similar, maybe under Advanced > General?
Then, of course, remove the "privacy" options from the upload routine. Otherwise, you've got two different routines trying to modify the same things.
This would probably require some rethinking on the question of profile page listing when the albums are hosted on jalbum.net. That's semi-automatic now. Maybe it shouldn't be.
This is another one that I'd like to see addressed. For my own use of jAlbum, not an issue, but every time a user posts about having problems with this, I actually have to go hunting for where, exactly, these things get set. Some of the critical settings aren't visible at all until you're in the middle of doing an upload. Very obscure.