Laggy animations Mavericks

I got a Mac Pro 2009. I got it a month ago and installed mountain lion on it, the animations were very slow and it didn't work at all. I didn't understand it because it should be compatible. So I decided to wait for Mavericks. I did a clean install and whiped the whole hard drive, but still there are these laggy animations. When I scroll, launch launchpad, start safari etc. It is terrible, I can't do anything. I have already tried a lot of troubleshooting, but nothing works. I need to get it fixed as soon as possible. Please help...

Here are some ideas for why animations are may be slow:
• Competition for the Boot Drive --
If everything you are manipulating and all the System and Program information is on one drive, it can induce a "traffic jam" around that drive. The drive heads are sent all over the drive getting a little of this and a little of that, and everything slows down.
The easiest way to speed up a Mac Pro is to have the Boot Drive (with only System, Library, Applications, and the hidden unix files including Paging/Swap on one drive, and all User data on another drive. If the Boot drive is a low-latency SSD, that gives an even bigger improvement.
• A failing Boot Drive--
Disk data are recorded with an error correcting code that can fix a few bits in a burst. When a data block cannot be read on the first try, you may suffer up to 1,000 re-tries in an attempt to get correctable data. If it eventually does get correctable data, everything proceeds. If not, you get I/O error.
• Competing processes --
Web-based synchronization, such as iCloud photo sync or DropBox are notorious for using up bursts of compute cycles doing un-needed synchronization.. You may find you get better results if you shut those off while trying to run animations

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    Hardware Information:
              MacBook Pro (Retina, Mid 2012)
              MacBook Pro - model: MacBookPro10,1
              1 2.3 GHz Intel Core i7 CPU: 4 cores
              8 GB RAM
    Video Information:
              Intel HD Graphics 4000 - VRAM: 1024 MB
              NVIDIA GeForce GT 650M - VRAM: 1024 MB
    System Software:
              OS X 10.9.1 (13B42) - Uptime: 0 days 0:24:20
    Disk Information:
              APPLE SSD SM256E disk0 : (251 GB)
                        EFI (disk0s1) <not mounted>: 209,7 MB
                        Macintosh HD (disk0s2) /: 250,14 GB (64,92 GB free)
                        Recovery HD (disk0s3) <not mounted>: 650 MB
    USB Information:
              Apple Inc. FaceTime HD Camera (Built-in)
              Apple Inc. BRCM20702 Hub
                        Apple Inc. Bluetooth USB Host Controller
              Apple Inc. Apple Internal Keyboard / Trackpad
              Microsoft Microsoft® Nano Transceiver v2.0
    FireWire Information:
    Thunderbolt Information:
              Apple Inc. thunderbolt_bus
    Kernel Extensions:
              org.virtualbox.kext.VBoxDrv          (4.2.8)
              org.virtualbox.kext.VBoxUSB          (4.2.8)
              com.logmein.driver.LogMeInSoundDriver          (1.0.2 - SDK 10.5)
              com.parallels.virtualsound          (1.0 22731.929773)
    Startup Items:
              VirtualBox: Path: /Library/StartupItems/VirtualBox
    Problem System Launch Daemons:
    Problem System Launch Agents:
    Launch Daemons:
              [loaded] com.adobe.fpsaud.plist 3rd-Party support link
              [not loaded] com.logmein.logmeinblanker.plist 3rd-Party support link
              [failed] com.logmein.logmeinserver.plist 3rd-Party support link
              [loaded] com.logmein.raupdate.plist 3rd-Party support link
              [loaded] com.microsoft.office.licensing.helper.plist 3rd-Party support link
              [loaded] com.parallels.mobile.dispatcher.launchdaemon.plist 3rd-Party support link
              [loaded] com.parallels.mobile.kextloader.launchdaemon.plist 3rd-Party support link
              [failed] com.symantec.nav.uninstall.English.plist 3rd-Party support link
              [failed] com.symantec.nis.uninstall.Brazilian.plist 3rd-Party support link
              [not loaded] com.teamviewer.teamviewer_service.plist 3rd-Party support link
              [loaded] org.macosforge.xquartz.privileged_startx.plist 3rd-Party support link
    Launch Agents:
              [not loaded] com.hp.devicemonitor.plist 3rd-Party support link
              [failed] com.logmein.LMILaunchAgentFixer.plist 3rd-Party support link
              [failed] com.logmein.logmeingui.plist 3rd-Party support link
              [failed] com.logmein.logmeinguiagent.plist 3rd-Party support link
              [not loaded] com.logmein.logmeinguiagentatlogin.plist 3rd-Party support link
              [loaded] com.nike.nikeplusconnect.plist 3rd-Party support link
              [loaded] com.parallels.mobile.prl_deskctl_agent.launchagent.plist 3rd-Party support link
              [not loaded] com.teamviewer.teamviewer.plist 3rd-Party support link
              [not loaded] com.teamviewer.teamviewer_desktop.plist 3rd-Party support link
              [loaded] org.macosforge.xquartz.startx.plist 3rd-Party support link
    User Launch Agents:
              [loaded] com.adobe.ARM.[...].plist 3rd-Party support link
              [loaded] com.BlueStacks.AppPlayer.LogRotator.plist 3rd-Party support link
              [loaded] com.BlueStacks.AppPlayer.Service.plist 3rd-Party support link
              [loaded] com.BlueStacks.AppPlayer.UninstallAgent.plist 3rd-Party support link
              [loaded] com.BlueStacks.AppPlayer.UpdaterAgent.plist 3rd-Party support link
              [loaded] com.google.keystone.agent.plist 3rd-Party support link
              [loaded] com.parallels.mobile.startgui.launchagent.plist 3rd-Party support link
              [loaded] com.valvesoftware.steamclean.plist 3rd-Party support link
              [not loaded] org.virtualbox.vboxwebsrv.plist 3rd-Party support link
    User Login Items:
              iTunesHelper
              Google Drive
              HyperDock Helper
              Caffeine
    Internet Plug-ins:
              FlashPlayer-10.6: Version: 11.9.900.170 - SDK 10.6 3rd-Party support link
              Default Browser: Version: 537 - SDK 10.9
              AdobePDFViewerNPAPI: Version: 11.0.04 - SDK 10.6 3rd-Party support link
              AdobePDFViewer: Version: 11.0.04 - SDK 10.6 3rd-Party support link
              Flash Player: Version: 11.9.900.170 - SDK 10.6 3rd-Party support link
              QuickTime Plugin: Version: 7.7.3
              SharePointBrowserPlugin: Version: 14.3.9 - SDK 10.6 3rd-Party support link
              OnLiveGameClientDetector: Version: OnLiveGameClientDetector 1.0.0 3rd-Party support link
              Silverlight: Version: 5.1.20513.0 - SDK 10.6 3rd-Party support link
              JavaAppletPlugin: Version: 14.8.0 - SDK 10.9 Outdated! Update
    Audio Plug-ins:
              BluetoothAudioPlugIn: Version: 1.0 - SDK 10.9
              AirPlay: Version: 1.9 - SDK 10.9
              AppleAVBAudio: Version: 2.0.0 - SDK 10.9
              iSightAudio: Version: 7.7.3 - SDK 10.9
    User Internet Plug-ins:
              BlueStacks Install Detector: Version: 0.2.5 - SDK 10.6 3rd-Party support link
              npsf_abn: Version: sf 3.3.2.1 3rd-Party support link
              Google Earth Web Plug-in: Version: 7.1 3rd-Party support link
    3rd Party Preference Panes:
              Box Sync  3rd-Party support link
              Flash Player  3rd-Party support link
              HyperDock  3rd-Party support link
              MagicPrefs  3rd-Party support link
    Bad Fonts:
              None
    Old Applications:
              /Library/Application Support/Microsoft/MERP2.0
                        Microsoft Error Reporting:          Version: 2.2.9 - SDK 10.4 3rd-Party support link
                        Microsoft Ship Asserts:          Version: 1.1.4 - SDK 10.4 3rd-Party support link
              Senuti:          Version: 1.2.9 - SDK 10.5 3rd-Party support link
                        /Users/kalilholanda/Downloads/Senuti.app
              SLLauncher:          Version: 1.0 - SDK 10.5 3rd-Party support link
                        /Library/Application Support/Microsoft/Silverlight/OutOfBrowser/SLLauncher.app
              HP Device Monitor:          Version: 2.7.0 - SDK 10.5 3rd-Party support link
                        /Library/Printers/hp/hpio/HP Device Monitor.app
              /Applications/Microsoft Office 2011/Office
                        Microsoft Graph:          Version: 14.3.9 - SDK 10.5 3rd-Party support link
                        Microsoft Database Utility:          Version: 14.3.9 - SDK 10.5 3rd-Party support link
                        Microsoft Office Reminders:          Version: 14.3.9 - SDK 10.5 3rd-Party support link
                        Microsoft Upload Center:          Version: 14.3.9 - SDK 10.5 3rd-Party support link
                        My Day:          Version: 14.3.9 - SDK 10.5 3rd-Party support link
                        SyncServicesAgent:          Version: 14.3.9 - SDK 10.5 3rd-Party support link
                        Open XML for Excel:          Version: 14.3.9 - SDK 10.5 3rd-Party support link
                        Microsoft Alerts Daemon:          Version: 14.3.9 - SDK 10.5 3rd-Party support link
                        Microsoft Database Daemon:          Version: 14.3.9 - SDK 10.5 3rd-Party support link
                        Microsoft Chart Converter:          Version: 14.3.9 - SDK 10.5 3rd-Party support link
                        Microsoft Clip Gallery:          Version: 14.3.9 - SDK 10.5 3rd-Party support link
              /Applications/Microsoft Office 2011
                        Microsoft PowerPoint:          Version: 14.3.9 - SDK 10.5 3rd-Party support link
                        Microsoft Excel:          Version: 14.3.9 - SDK 10.5 3rd-Party support link
                        Microsoft Outlook:          Version: 14.3.9 - SDK 10.5 3rd-Party support link
                        Microsoft Word:          Version: 14.3.9 - SDK 10.5 3rd-Party support link
                        Microsoft Document Connection:          Version: 14.3.9 - SDK 10.5 3rd-Party support link
              Microsoft Language Register:          Version: 14.3.9 - SDK 10.5 3rd-Party support link
                        /Applications/Microsoft Office 2011/Additional Tools/Microsoft Language Register/Microsoft Language Register.app
              Solver:          Version: 1.0 - SDK 10.5 3rd-Party support link
                        /Applications/Microsoft Office 2011/Office/Add-Ins/Solver.app
              Microsoft AutoUpdate:          Version: 2.3.6 - SDK 10.4 3rd-Party support link
                        /Library/Application Support/Microsoft/MAU2.0/Microsoft AutoUpdate.app
              Assistente de configuração HP:          Version: 3.3.1 - SDK 10.5 3rd-Party support link
                        /Applications/Hewlett-Packard/Device Utilities/HP Setup Assistant.app
    Time Machine:
              Skip System Files: NO
              Mobile backups: OFF
              Auto backup: YES
              Volumes being backed up:
                        Macintosh HD: Disk size: 232.96 GB Disk used: 172.50 GB
              Destinations:
                        HD TimeCapsule [Network] (Last used)
                        Total size: 2 
                        Total number of backups: 54
                        Oldest backup: 2013-07-12 12:38:47 +0000
                        Last backup: 2014-01-04 15:10:20 +0000
                        Size of backup disk: Excellent
                                  Backup size 2  > (Disk size 232.96 GB X 3)
              Time Machine details may not be accurate.
              All volumes being backed up may not be listed.
    Top Processes by CPU:
                   2%          WindowServer
                   2%          EtreCheck
                   0%          Google Drive
                   0%          configd
                   0%          systemstatsd
    Top Processes by Memory:
              279 MB          Safari
              156 MB          com.apple.WebKit.WebContent
              131 MB          Dock
              115 MB          mds_stores
              106 MB          WindowServer
    Virtual Memory Information:
              3.04 GB          Free RAM
              3.68 GB          Active RAM
              299 MB          Inactive RAM
              1005 MB          Wired RAM
              347 MB          Page-ins
              0 B          Page-outs

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              BitTorrent
              Autodesk 360
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              FlashPlayer-10.6: Version: 13.0.0.201 - SDK 10.6 Support
              AdobePDFViewer: Version: 10.0.0 Support
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              1.44 GB          Active RAM
              190 MB          Inactive RAM
              558 MB          Wired RAM
              303 MB          Page-ins
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                        Macintosh HD (disk0s2) / [Startup]: 499.25 GB (309.44 GB free)
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              [loaded] com.microsoft.office.licensing.helper.plist Support
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              1.44 GB          Active RAM
              190 MB          Inactive RAM
              558 MB          Wired RAM
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    If you don't already have a current backup, back up all data before doing anything else. This procedure is a diagnostictest. It changes nothing, for better or worse, and therefore will not, in itself, solve your problem. The backup is necessary in case your startup drive is failing.
    Third-party system modifications are a common cause of usability problems. By a “system modification,” I mean software that affects the operation of other software — potentially for the worse. The procedure will help identify which such modifications you've installed, as well as some other aspects of the configuration that may be related to the problem.
    Don’t be alarmed by the seeming complexity of these instructions — they’re easy to carry out. Here's a brief summary: In each of two steps, you copy a line of text from this web page into a window in another application. You wait about a minute. Then you paste some other text, which will have been copied automatically, back into a reply on this page. The sequence is copy; paste; paste again. That's all there is to it. Details follow.
    While investigating the problem, you may have started the computer in "safe" mode. If possible, these steps should be taken while booted in “normal” mode, not in safe mode. If you’re now running in safe mode, reboot as usual before continuing. If you can only boot in safe mode, you can still use this procedure, but not all of it will work. Be sure to mention that in your reply, if you haven't already done so.
    Below are instructions to enter UNIX shell commands. The commands are safe and do nothing but produce human-readable output, but they must be entered exactly as given in order to work. If you question the safety of the procedure suggested here — which you should — search this site for other discussions in which it’s been followed without any report of ill effects. I am not asking you to trust me. If you can't satisfy yourself that these instructions are safe, don't follow them.
    The commands will line-wrap or scroll in your browser, but each one is really just a single long line, all of which must be selected. You can accomplish this easily by triple-clicking anywhere in the line. The whole line will highlight, and you can then copy it.
    Note: If you have more than one user account, Step 2 must be taken as an administrator. Ordinarily that would be the user created automatically when you booted the system for the first time. Step 1 should be taken as the user who has the problem, if different. Most personal Macs have only one user, and in that case this paragraph doesn’t apply.
    Launch the Terminal application in any of the following ways: 
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    ☞ In the Finder, select Go ▹ Utilities from the menu bar, or press the key combination shift-command-U. The application is in the folder that opens. 
    ☞ Open LaunchPad. Click Utilities, then Terminal in the icon grid. 
    When you launch Terminal, a text window will open with a line already in it, ending either in a dollar sign (“$”) or a percent sign (“%”). If you get the percent sign, enter “sh” and press return. You should then get a new line ending in a dollar sign. 
    Step 1 
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    Copy the selected text to the Clipboard by pressing the key combination command-C. Then click anywhere in the Terminal window and paste (command-V). I've tested these instructions only with the Safari web browser. If you use another browser, you may have to press the return key after pasting.
    The command may take up to a few minutes to run, depending on how many files you have and the speed of the computer. Wait for the line "Step 1 done" to appear below what you entered. The output of the command will be automatically copied to the Clipboard. If the command produced no output, the Clipboard will be empty. Paste into a reply to this message. No typing is involved in this step.
    Step 2 
    Remember that you must be logged in as an administrator for this step. Do as in Step 1 with this line:
    PR () { [[ "$o" ]] && printf '\n%s:\n\n%s\n\n' "$1" "$o"; }; { o=$(sudo launchctl list | sed 1d | awk '!/0x|com\.(apple|openssh|vix\.cron)|org\.(amav|apac|calendarse|cups|dove|isc|ntp|post[fg]|x)/{print $3}'); PR "Loaded extrinsic daemons"; o=$(sudo defaults read com.apple.loginwindow LoginHook); PR "Login hook"; o=$(sudo crontab -l); PR "Root cron tasks"; o=$(syslog -k Sender kernel -k Message CReq 'error|GPU |hfs: Ru|I/O e|find tok|n Cause: -|NVDA\(|pagin|timed? ?o' | tail -n25 | awk '/:/{$4=""; print}'); PR "Log check"; } 2> /dev/null | pbcopy; echo $'\nStep 2 done'
    This time you'll be prompted for your login password, which you do have to type. Nothing will be displayed when you type it. Type it carefully and then press return. You may get a one-time warning to be careful. Heed that warning, but don't post it. If you see a message that your username "is not in the sudoers file," then you're not logged in as an administrator.
    You can then quit Terminal.
    To prevent confusion, I'll repeat: When you type your password in the Terminal window, you won't see what you're typing.
    Note: If you don’t have a login password, set one before taking Step 2. If that’s not possible, skip the step.
    Important: If any personal information, such as your name or email address, appears in the output of these commands, anonymize it before posting. Usually that won't be necessary.
    Remember, Steps 1 and 2 are all copy-and-paste — type only your password. Also remember to post the output.

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