Clean reinstall aftermath

My internet apps have slowed way down, and other apps are slow to open. I'd like to do a clean reinstall; but due to a flood in my basement, I've lost most of my original software discs. I have a complete disc image backed up, but I don't want to use it, because I'll just reinstall the same problems. I also have the complete hard drive backed up separately, one-to-one. I'm wondering if I'll have problems if I just drag the apps from the external back-up drive into my new Applications folder.
Are there any special steps or precautions I need to take?
I'm also wondering whether, if I drag the contents of my old Library folder into the new Library folder, I'll basically be able to just pick up where I left off; or if I'm also likely to drag the old problems back in as well; and if I'll be able to drag the contents of my Microsoft User Data folder in to the new system without incident.
Thanks in advance for your help.
Eric

Hi Eric!
"...120GB hard drive with only about 11 GB of free space."
You are dangerously close to crossing the safe threshold!
Insufficient available space, can cause performance issues, system corruption, and possible loss of data.
Depending on Mac system usage habits, it is a general recommendation, to keep 10% to as much as 20%, of the Total capacity, available at all times.
Review the suggestions, in the documents that I have linked to below.
Authored by Dr Smoke:
Problems From Insufficient RAM And Free Hard Disk Space
Freeing Space On Your Mac OS X Startup Disk
Have you ever run any routine Maintenance procedures, as suggested in the articles linked to below?
Mac OS X 10.3/10.4: System Maintenance, authored by Gulliver
Maintaining Mac OS X, authored by Dr Smoke
Is the Mac shutdown overnight, or does it run 24/7?
If you turn the Mac off nightly, the Background Maintenance Tasks, are never run.
These can also be run, using a Third-Party utility, or manually using Terminal, to run the CRON Commands.
I use MacJanitor, when necessary.
AppleJack probably has the same functions.
INSTRUCTIONS TO RUN CRON MANUAL COMMANDS
Quit all applications/programs.
Navigate to HD > Applications > Utilities.
Double click on Terminal, to open.
At the prompt, type:
sudo periodic daily
Press Return.
Enter your Admin password when prompted, then press Return.
This will execute the daily script that is sheduled to run every night.
When completed, repeat this procedure, but change the command to:
sudo periodic weekly
This one rebuilds a database or two, and usually takes somewhat longer to complete. It is scheduled to run once a week.
Repeat again, with command:
sudo periodic monthly
Or they can all be run in one pass, which is preferable, with this command:
sudo periodic daily weekly monthly
When the tasks complete, and return to the prompt, you may quit Terminal.
Restart the Mac, and run Repair Permissions.
TO REPAIR PERMISSIONS ON THE STARTUP DISK
1.Open Disk Utility, located in Applications/Utilities, and select the startup disk in the left column.
2.Click First Aid.
3.Click Verify Disk Permissions to test permissions or Repair Disk Permissions to test and repair permissions. (I never "Verify". Just run "Repair".)
Rerun RP, until the only messages reported, are listed here Spurious Permissions Errors Using: 10.4.x, authored by Michael Conniff.
When "Repair Permissions" is complete. Quit "Disk Utility".
ali b

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    Message was edited by: andynick

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    Hope this helps.
    Cheers!

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