After Upgrade to Yosemite, all apps are slow.

Question

I upgraded to Yosemite  and all applications are slow.  ( as e.g.. starting to type in this box give me beachball for 2 seconds initially) A big difference in speed from Mavericks to Yosemite. Opening system preferences takes 3 seconds to load, and clicking on Users & Groups takes 25 seconds to open.
I do not have fire vault enabled.  I did a safe boot and some apps did appear to open faster. Also did a repair disk and rebooted.  No change. When Safari is open it takes 5 seconds to open a new window.   I ran EtreCheck and the report is as follows;
Thanks for any help;( After pasting the EtreCheck text file, I clicked on this box to add the Thanks... , it took 2-3 seconds for the beach ball to stop spinning.)
Problem description:
After upgrading to Yosemite, all apps are slow,
EtreCheck version: 2.0.6 (91)
Report generated October 20, 2014 at 11:46:01 AM MDT
Hardware Information: ℹ️
  iMac (24-inch, Early 2009) (Verified)
  iMac - model: iMac9,1
  1 2.66 GHz Intel Core 2 Duo CPU: 2-core
  8 GB RAM Upgradeable
  BANK 0/DIMM0
  4 GB DDR3 1067 MHz ok
  BANK 1/DIMM0
  4 GB DDR3 1067 MHz ok
  Bluetooth: Old - Handoff/Airdrop2 not supported
  Wireless:  en1: 802.11 a/b/g/n
Video Information: ℹ️
  NVIDIA GeForce 9400 - VRAM: 256 MB
  iMac 1920 x 1200
System Software: ℹ️
  OS X 10.10 (14A389) - Uptime: 0:23:55
Disk Information: ℹ️
  WDC WD6400AAKS-40H2B0 disk0 : (640.14 GB)
  S.M.A.R.T. Status: Verified
  EFI (disk0s1) <not mounted> : 210 MB
  Macintosh HD (disk0s2) /  [Startup]: 639.28 GB (130.48 GB free)
  Recovery HD (disk0s3) <not mounted>  [Recovery]: 650 MB
  OPTIARC DVD RW AD-5670S 
USB Information: ℹ️
  Apple Inc. Built-in iSight
  Burr-Brown from TI USB Audio CODEC
  Canon MP480 series
  Western Digital My Book 1140 2 TB
  S.M.A.R.T. Status: Verified
  EFI (disk2s1) <not mounted> : 210 MB
  MyBookMovies (disk2s2) /Volumes/MyBookMovies : 2 TB (549.58 GB free)
  LaCie LaCie Hard Drive USB 1 TB
  S.M.A.R.T. Status: Verified
  EFI (disk1s1) <not mounted> : 210 MB
  Time Machine Backups (disk1s2) /Volumes/Time Machine Backups : 795.40 GB (322.99 GB free)
  Time Machine Airdisk (disk1s3) /Volumes/Time Machine Airdisk : 100.77 GB (55.52 GB free)
  EXCHANGE (disk1s4) /Volumes/EXCHANGE : 100.09 GB (45.35 GB free)
  ALCOR Generic USB Hub
  Prolific Technology Inc. USB-Serial Controller
  Prolific Technology Inc. USB-Serial Controller
  Hewlett-Packard hp LaserJet 1012
  Apple Computer, Inc. IR Receiver
  Prolific Technology Inc. USB-Serial Controller D
  Apple Inc. BRCM2046 Hub
  Apple Inc. Bluetooth USB Host Controller
Gatekeeper: ℹ️
  Mac App Store and identified developers
Kernel Extensions: ℹ️
  /Applications/Parallels Desktop.app
  [not loaded] com.parallels.kext.hidhook (9.0 24251.1052177) Support
  [not loaded] com.parallels.kext.hypervisor (9.0 24251.1052177) Support
  [not loaded] com.parallels.kext.netbridge (9.0 24251.1052177) Support
  [not loaded] com.parallels.kext.usbconnect (9.0 24251.1052177) Support
  [not loaded] com.parallels.kext.vnic (9.0 24251.1052177) Support
  /Applications/Toast 11 Titanium/Spin Doctor.app
  [not loaded] com.hzsystems.terminus.driver (4) Support
  /Library/Application Support/VirtualBox
  [loaded] org.virtualbox.kext.VBoxDrv (4.3.12) Support
  [loaded] org.virtualbox.kext.VBoxNetAdp (4.3.12) Support
  [loaded] org.virtualbox.kext.VBoxNetFlt (4.3.12) Support
  [loaded] org.virtualbox.kext.VBoxUSB (4.3.12) Support
  /Library/Extensions
  [not loaded] foo.tun (1.0) Support
  /System/Library/Extensions
  [not loaded] com.hzsystems.driver.CDSDAudioCaptureSupport (1.5) Support
  [loaded] com.prolific.driver.PL2303 (1.5.1 - SDK 10.6) Support
  [not loaded] com.roxio.BluRaySupport (1.1.6) Support
  [not loaded] com.wdc.driver.1394HP (1.0.9) Support
  [not loaded] com.wdc.driver.USBHP (1.0.11) Support
  /Users/[redacted]/Library/Services/ToastIt.service/Contents/MacOS
  [not loaded] com.roxio.TDIXController (2.0) Support
Startup Items: ℹ️
  HP IO: Path: /Library/StartupItems/HP IO
  Startup items are obsolete and will not work in future versions of OS X
Problem System Launch Agents: ℹ️
  [loaded] com.paragon.NTFS.notify.plist Support
Launch Agents: ℹ️
  [running] com.abbott.mal.launchclient.plist Support
  [loaded] org.gpgtools.gpgmail.enable-bundles.plist Support
  [loaded] org.gpgtools.gpgmail.patch-uuid-user.plist Support
  [loaded] org.gpgtools.Libmacgpg.xpc.plist Support
  [loaded] org.gpgtools.macgpg2.fix.plist Support
  [running] org.gpgtools.macgpg2.shutdown-gpg-agent.plist Support
  [loaded] org.gpgtools.macgpg2.updater.plist Support
Launch Daemons: ℹ️
  [running] com.abbott.mal.malserver.plist Support
  [loaded] com.adobe.fpsaud.plist Support
  [running] com.freemacsoft.appcleanerd.plist Support
  [loaded] com.microsoft.office.licensing.helper.plist Support
  [running] com.wdc.SmartwareDriveService.plist Support
  [running] com.wdc.WDSmartWareService.plist Support
  [loaded] org.gpgtools.gpgmail.patch-uuid.plist Support
  [not loaded] org.virtualbox.startup.plist Support
User Launch Agents: ℹ️
  [loaded] com.adobe.ARM.[...].plist Support
  [loaded] com.google.keystone.agent.plist Support
  [invalid?] com.macpaw.CleanMyMac.trashSizeWatcher.plist Support
  [invalid?] com.macpaw.CleanMyMac.volumeWatcher.plist Support
  [loaded] com.macpaw.CleanMyMac2Helper.scheduledScan.plist Support
  [failed] com.macpaw.CleanMyMac2Helper.trashWatcher.plist Support
  [running] com.vladalexa.MagicPrefs.plist Support
  [not loaded] org.virtualbox.vboxwebsrv.plist Support
  [running] ws.agile.1PasswordAgent.plist Support
User Login Items: ℹ️
  AppCleaner Helper Application (/Applications/AppCleaner.app/Contents/Library/LoginItems/AppCleaner Helper.app)
  Messages Application (/Applications/Messages.app)
  MagicPrefs UNKNOWN (missing value)
  Calendar ApplicationHidden (/Applications/Calendar.app)
  Mail ApplicationHidden (/Applications/Mail.app)
  Contacts ApplicationHidden (/Applications/Contacts.app)
  PowerboxInjector Application (/Applications/PowerboxInjector.app)
Internet Plug-ins: ℹ️
  LogitechHarmony: Version: 2.0 - SDK 10.7 Support
  DirectorShockwave: Version: 12.0.4r144 - SDK 10.6 Support
  Google Earth Web Plug-in: Version: 6.0 Support
  Default Browser: Version: 600 - SDK 10.10
  Flip4Mac WMV Plugin: Version: 3.2.0.16   - SDK 10.8 Support
  OfficeLiveBrowserPlugin: Version: 12.2.0 Support
  Silverlight: Version: 5.1.20913.0 - SDK 10.6 Support
  FlashPlayer-10.6: Version: 15.0.0.189 - SDK 10.6 Support
  Flash Player: Version: 15.0.0.189 - SDK 10.6 Support
  iPhotoPhotocast: Version: 7.0
  QuickTime Plugin: Version: 7.7.3
  SharePointBrowserPlugin: Version: 14.3.9 - SDK 10.6 Support
  AdobePDFViewer: Version: 9.5.5 Support
  GarminGpsControl: Version: 4.2.0.0 - SDK 10.8 Support
  EPPEX Plugin: Version: 4.1.0.0 Support
  JavaAppletPlugin: Version: 15.0.0 - SDK 10.10 Check version
Safari Extensions: ℹ️
  1Password
  AdBlock
  ClickToFlash (Disabled)
  Print Plus (Disabled)
  ClickToPlugin (Disabled)
  OpenIE
3rd Party Preference Panes: ℹ️
  Flash Player  Support
  Flip4Mac WMV  Support
  GPGPreferences  Support
  Growl  Support
  MacFUSE (Tuxera)  Support
  MagicPrefs  Support
  Paragon NTFS for Mac ® OS X  Support
  Perian  Support
  QuickTime Player X Preferences  Support
  WDQuickView  Support
Time Machine: ℹ️
  Skip System Files: NO
  Mobile backups: OFF
  Auto backup: YES
  Destinations:
  Time Machine Backups [Local]
  Total size: 795.40 GB
  Total number of backups: 29
  Oldest backup: 2014-10-08 20:15:48 +0000
  Last backup: 2014-10-20 17:32:33 +0000
  Size of backup disk: Excellent
  Backup size 795.40 GB > (Disk size 0 B X 3)
Top Processes by CPU: ℹ️
      10% WindowServer
      5% syncdefaultsd
      4% Safari
      1% AppleSpell
      0% com.apple.iCloudHelper
Top Processes by Memory: ℹ️
  266 MB mds_stores
  258 MB Safari
  180 MB Finder
  137 MB WindowServer
  136 MB com.apple.WebKit.WebContent
Virtual Memory Information: ℹ️
  3.93 GB Free RAM
  2.97 GB Active RAM
  443 MB Inactive RAM
  978 MB Wired RAM
  1.82 GB Page-ins
  0 B Page-outs

Answer 1

You could do that, but when setting up your new iMac it is a much better idea to transfer only your existing User Accounts. In other words when Setup Assistant appears, de-select "Applications", "Computer and Network Settings" and "Other files and folders". That way you will eliminate the possibility of reinstalling potentially incompatible software from your existing Mac or its TM backup. It's best to create new printer queues and preferences anyway.
Your venerable HP 1012 will probably work without any difficulty but if you need its driver download it here. If it gives you trouble try OS X's generic PostScript driver.
After configuring your user account, install original versions of your essential software from their original sources. In other words if you installed them via download from the developer's website, download them again. You might need license keys so gather them. Obviously the Mac App Store makes things easy since anything you obtain from there is already linked to your Apple ID and is easily reinstalled by going to your Purchases page.
Don't reinstall things like AppCleaner, CleanMyMac, Western Digital "Smartware" or any of that junk. You don't need it. MacFUSE is outdated. Research Prolific Technology for potential updates for their serial controller. The one you have may work, or not, but you should re-download its driver.
Consider abandoning Microsoft altogether and migrating to better solutions such as Pages, Numbers, and Keynote. They are all free with a purchase of a new Mac and are far more integrated with OS X than anything Microsoft will ever be able to accomplish.
The Burr-Brown USB device is unknown to me, so research TI's website for support if you need it.
If your essential software was distributed on optical media, you can use OS X's "DVD or CD sharing" feature to remotely mount the older iMac's optical drive so that you can install its software. It will work as though that drive were physically installed on your new Mac. Having said that, anything that was distributed on optical media is highly likely to have been outdated a long time ago.
If your essential software is old, orphaned, no longer supported, or is no longer available, meaning you have the only viable copy, the only option is to transfer it from the TM backup or older Mac. In that case be very cognizant of the likelihood for incompatibility, and have a plan for uninstalling it should it cause adverse effects. Creating a new TM backup is the way to do that. A new external HD dedicated to the new Mac is a cheap investment. When you are certain you no longer require the older Mac's TM backup, you can erase it and use it as an additional, redundant TM backup or "clone" repository – whichever you decide is best for your backup needs.