1, 2, 3 & 4: Thanks for the complete Startup Items screen shot. First, I don't think I would put the Lazy Mouse,prefpane item in there. That's obviously why it's opened on Start up, however; you have set it to do that. And, since it may get that 'action' with what the System uses as the same thing as an "Open" command, it is trying to get itself placed in the System Prefs area. When it does that, the System Prefs issues the warning that it is already installed, "Would you like to have it over-write the current version?" warning. So, delete that Startup Item, open the System Prefs version of Lazy Mouse and see if it has an option to start at Startup.
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5- Finally, note that when you select...Lion Tweaks turns it off in individual apps of your choice. I tried all of that to no avail.
I may have changed that post after you read it. Upon further testing I notice I was saying the wrong things and that statement now uses "when you select
Shutdown or Restart, there is a checkbox " instead of anything about Lion Tweaks.
I think part of the confusion, and it really is confusing because Apple has not a very thorough job of explaining what does what and when, is the relationship of Auto-Save, Resume, Versions, Duplicate, etc. And the fact that these actions/behaviors are mainly active in Apple apps doesn't help matters. While they may not seem related to each other, I'm starting to think of them that way.
Auto-Save is pretty self-explanatory but it is not something the vast majority of computer users have expected or even trusted, at least since the Univac...
When Apple decided Auto-Save was a good idea, they also realized that
Versions might be extremely important because people might not realize that old stuff was being over-written behind their backs! Glad someone at Apple was able to see that bombshell coming!
Apparently, most Apple employees, developers, managers, etc. always work on the same document for several years at a time. Thus,
Resume seemed (to them) as a real benefit. So much for user-testing. But it tied in to the same philosophy as Auto-Save and Versions; "We've got to take care of what people need, even if they don't know it."
Later (I suspect) in the development of Lion, someone noticed that since Save was now automated, some of the other saving method needed 'adjusting,' also. Why they decided
Duplicate was an equivalent to what everyone had been doing for the last 20+ years, is beyond me. But, if your going to cause a little confusion, why not go all the way?! After all, all the developers/geeks understand it!
I didn't have a choice when I got this new iMac, Lion was already installed. But we now have 3 other Macs in the house and I am in no hurry to install it on them and face the inevitable questions and frustrations that have been voiced all over the interwebs! Frankly, I'm still trying to figure out how auto-spelling correction works; sometimes pressing return inserts the suggestion, sometimes it doesn't.
Just yesterday, my wife asked me why double-clicking an item on the Dock always presented her with a navigation window. Of course, she never can remember that the Dock icons need only a single click. Nor did she identify that window as a "navigation" window. Anyway, the reason the app did that was because it is set to ask what file one wants to use with a double-click opening command. What is worse is that it already has a default file set to be opened! And when she clicked the "Cancel" button, it then opened the file she always wants! But it had be going for some time trying to figure out why "Cancel" actually opened the file she wanted!!!
To make maters worse, she already had the file she wants on the files/folders side of the Dock, so there was really no need to even have the app's icon on there also.
I guess my point is that with your situation of using both OS's instead of mine where I am forced to do things the new way, you will probably have a longer learning curve than people like me. And I don't think that is in any way abnormal! What is abnormal to me is that so many changes were made in the reactions from the OS when the same actions/behaviors by the users are made. I think that is the cause for the large number of confused/disgruntled/even angry Lion users. Although I don't think Vista experience is an exact comparison to that of Lion.