How to "clean" my Macbook Pro

Question

Hi,
I'm interested in completely cleaning my Macbook Pro. I've no idea where to start so let me begin by detailing what's going on:
Some specs on the machine fist:
Processor 2.4GHz Intel Core 2 Duo
Memory 4GB 1067 MHz DDR3
Startup Disk Macintosh HD.
1) Im getting pop-ups like crazy. Every time I click a new pop-up annoyingly clutters my screen. I've gone to safari>preferences> extensions and removed all plug-ins, but still they persist. And yes, the "block pop ups" box is checked as well.
2) My machine is running slowly. I see the "rainbow wheel of death" much too often. Does this just happen when Macs get old? (Bought in 2010)
3) I want to purge my machine of all old junk that may be cloggin' 'er pipes. Basically, I want to get rid of everything I don't need. Old files: gone. Old, unused programs: gone. That thing I don't know the function of, but sits uselessly in the recondite depths of my memory: GONE.
4) Is there anyway to get my computer running "optimally". Certainly the current state is not even close to good. It's miserably slow.
Can anyone help me out? I imagine there are probably specific fixes for each of these issues, but is there a program out there (or combination of free ones) that will do more than one thing? Would Mac Keeper do these things? What's your advice?

Answer 1

See the following re: pop-ups and such:
Helpful Links Regarding Malware Problems
If you are having an immediate problem with ads popping up see The Safe Mac » Adware Removal Guide and AdwareMedic.
Open Safari, select Preferences from the Safari menu. Click on Extensions icon in the toolbar. Disable all Extensions. If this stops your problem, then re-enable them one by one until the problem returns. Now remove that extension as it is causing the problem.
The following comes from user stevejobsfan0123. I have made minor changes to adapt to this presentation.
Fix Some Browser Pop-ups That Take Over Safari.
Common pop-ups include a message saying the government has seized your computer and you must pay to have it released (often called "Moneypak"), or a phony message saying that your computer has been infected, and you need to call a tech support number (sometimes claiming to be Apple) to get it resolved. First, understand that these pop-ups are not caused by a virus and your computer has not been affected. This "hijack" is limited to your web browser. Also understand that these messages are scams, so do not pay any money, call the listed number, or provide any personal information. This article will outline the solution to dismiss the pop-up.
Quit Safari
Usually, these pop-ups will not go away by either clicking "OK" or "Cancel." Furthermore, several menus in the menu bar may become disabled and show in gray, including the option to quit Safari. You will likely have to force quit Safari. To do this, press Command + option + esc, select Safari, and press Force Quit.
Relaunch Safari
If you relaunch Safari, the page will reopen. To prevent this from happening, hold down the 'Shift' key while opening Safari. This will prevent windows from the last time Safari was running from reopening.
This will not work in all cases. The shift key must be held at the right time, and in some cases, even if done correctly, the window reappears. In these circumstances, after force quitting Safari, turn off Wi-Fi or disconnect Ethernet, depending on how you connect to the Internet. Then relaunch Safari normally. It will try to reload the malicious webpage, but without a connection, it won't be able to. Navigate away from that page by entering a different URL, i.e. www.apple.com, and trying to load it. Now you can reconnect to the Internet, and the page you entered will appear rather than the malicious one.
An excellent link to read is Tom Reed's Mac Malware Guide.
Also, visit The XLab FAQs and read Detecting and avoiding malware and spyware.
See these Apple articles:
  Mac OS X Snow Leopard and malware detection
  OS X Lion- Protect your Mac from malware
  OS X Mountain Lion- Protect your Mac from malware
  OS X Mavericks- Protect your Mac from malware
  About file quarantine in OS X
If you require anti-virus protection Thomas Reed recommends using ClamXAV. (Thank you to Thomas Reed for this recommendation.)
From user Joe Bailey comes this equally useful advice:
The facts are:
1. There is no anti-malware software that can detect 100% of the malware out there.
2. There is no anti-malware that can detect everything targeting the Mac.
3. The very best way to prevent the most attacks is for you as the user to be aware that
     the most successful malware attacks rely on very sophisticated social engineering
     techniques preying on human avarice, ****, and fear.
4. Internet popups saying the FBI, NSA, Microsoft, your ISP has detected malware on
    your computer is intended to entice you to install their malware thinking it is a
    protection against malware.
5. Some of the anti-malware products on the market are worse than the malware
    from which they purport to protect you.
6. Be cautious where you go on the internet.
7. Only download anything from sites you know are safe.
8. Avoid links you receive in email, always be suspicious even if you get something
    you think is from a friend, but you were not expecting.
9. If there is any question in your mind, then assume it is malware.
When you fix the above problem backup your data, erase your computer, reinstall OS X:
Clone Mavericks, Lion/Mountain Lion using Restore Option of Disk Utility
Boot to the Recovery HD:
Restart the computer and after the chime press and hold down the COMMAND and R keys until the menu screen appears. Alternatively, restart the computer and after the chime press and hold down the OPTION key until the boot manager screen appears. Select the Recovery HD and click on the downward pointing arrow button.
     1. Select Disk Utility from the main menu then press the Continue
         button.
     2. Select the destination volume from the left side list.
     3. Click on the Restore tab in the DU main window.
     4. Select the destination volume from the left side list and drag it
         to the Destination entry field.
     5. Select the source volume from the left side list and drag it to
         the Source entry field.
     6. Double-check you got it right, then click on the Restore button.
Destination means the external backup drive. Source means the internal startup drive.
Install or Reinstall Mavericks, Mountain Lion, or Lion from Scratch
Be sure you backup your files to an external drive or second internal drive because the following procedure will remove everything from the hard drive.
OS X Mavericks- Erase and reinstall OS X
OS X Mountain Lion- Erase and reinstall OS X
OS X Lion- Erase and reinstall Mac OS X
Note: You will need an active Internet connection. I suggest using Ethernet if possible
            because it is three times faster than wireless.