"File, Find, Searching "This Mac" or "New Finder Window" not finding files ?

I an iMac 7,1, Mac OS X 10.6.8, Build 10K549,
I have noticed on many occasions recently that when I ma using either ...
File, Find, Searching "This Mac"
or
"New Finder Window"
I am NOT finding the files I am looking for ...
I now they are there, so I go through all my folders, and find the files, or folders I am looking for ...
So why could this be happening, why are they not found in the search ?
Is there a fix or addition ?

As baltwo eventually explained, you have to add the search criteria "System files" to your search, with the option "Include" selected, to find many items Spotlight otherwise excludes from search results. Alternately (& quite ridiculously), if your search is restricted to the parent folder containing the item, you don't need to add this.
For example, if you open /Library in the Finder, enter "Desktop Pictures" in the search box, you won't get it in the results with the default "This Mac" location, but if you click "Library" for the location, you will. (Yes, many users think this is bizarre, "what were they thinking?" behavior.)
What Spotlight considers "system files" is only slightly less bizarre, as you will probably discover once you start using it to broaden searches. For instance, Safari history items & Mail.app messages are not found unless you include system files, but many files like C Header Source files (in System/Library/Frameworks) are found without including system files in the search.
When it was introduced in Tiger, Spotlight was supposed to be a next-generation search engine, capable of accurately guessing what you were looking for (& filtering out what you weren't) with near-sentient intelligence. I think almost anyone who used that version will agree it did not achieve that lofty goal. Apple apparently agreed, or at least listened to the complaints enough to realize it needed rethinking. Unfortunately, what its designers came up with for the Leopard rethink feels like an early beta version, full of hastily implemented, quirky features that never got sorted out before it was released.
We can only hope that we won't have to wait for OS 10.6 for a more mature, less quirky version.

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