Can Somebody tell me how to get my MBP like it Was...

I received a new MBP (thanks to a genius who was tired of trying to fix all my software and hardware issues). The same tech said when the new MBP comes in he will transfer my data, settings, etc to my new computer and update it. I did not think of it at the time, but when I got the MBP (the new one back) and realized he transfered everything, Preferences settings, files, folders, even the programs in a seperate folder-all that I would think one could transfer in regards to software. When my new MBP started acting up I realized a lot of the stuff it was doing was what my old MBP was doing.
I called him and asked if we should have tried to fix the software issues before transferring everything or maybe just putting them in folders and I could save my bookmarks, docs, etc. but trash all the settings, preferences, stuff like that.
I would like to get the notebook back to how it arrive at the Apple Store plus with the latest important updates. I know it involves some critical stuff, but I do not have enough confidence that I will be able to accomplish what needs to be done and have it done correctly.
Are there articles for a new MBP that walks a person step by step in removing everything, wiping the HD clean and doing a fresh install, step by step in the correct order of things and leaving everything off other then my passwords, bookmarks, and a few docs?
Any suggestions?
Thanks.

Thanks Roger-
What about the bookmarks? I really have nothing I want to save and transfer over because all I have been through with the old MBP and now this new one with the data that was transferred from my old MBP. I would have thought that the genius guy would have thought about the problems since he was the one who tried to fix the old MBP and left to talk to the manager and came back to tell me they were going to get me a new MBP.
Anyway, what about the ONE-to-One that I registered on this computer and I have a link to click that brings me to my page and other things like my keychain or all my passwords and usernames? It looks like I missed some with the new MBP because it does not have a name and some small stuff like that is missing because I did not do a set-up. The genius guy did the transfer of all my stuff from my old MBP.
There were a lot of updates that the genius guy did get (but when I got the MBP, I have been unable to get the machine to tell me I have new updates). I had to find out was I really missing updates or was it something else. I tried to find the place that lists the updates that come across <Apple>Software Updates... I found several "latest updates, recent 3rd party updates, top Apple downloads, but I am not sure which category is the one that tells me the updates I should have had. I know that iTunes it missed, but the rest I am not sure which list has the updates I need.
Make any sense? I did not get an iLife disk. Is iLife on the grey disks now?

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