Q: Mid 2012 Macbook Pro w/out Retina incredibly slow

Hello, I'm typing this us for my mother. She has a mid-2012 Macbook pro without retina that is very slow. She recently upgraded to 16gb ram and we are all pretty sure she did it correctly. It beachballs constantly and takes over a minute to launch Safari. The fan is also quite loud now. It is running El Captain. Thank you in advance!

Here is the EtreCheck:

EtreCheck version: 3.0.3 (307)

Report generated 2016-09-18 10:33:08

Download EtreCheck from https://etrecheck.com

Runtime 2:44

Performance: Excellent

Click the [Support] links for help with non-Apple products.

Click the [Details] links for more information about that line.

Problem: Computer is too slow

Description:

The computer is very slow and beach balling

Hardware Information: ⓘ

    MacBook Pro (13-inch, Mid 2012)

    [Technical Specifications] - [User Guide] - [Warranty & Service]

    MacBook Pro - model: MacBookPro9,2

    1 2.5 GHz Intel Core i5 CPU: 2-core

    16 GB RAM Upgradeable - [Instructions]

        BANK 0/DIMM0

            8 GB DDR3 1600 MHz ok

        BANK 1/DIMM0

            8 GB DDR3 1600 MHz ok

    Bluetooth: Good - Handoff/Airdrop2 supported

    Wireless:  en1: 802.11 a/b/g/n

    Battery: Health = Normal - Cycle count = 129

Video Information: ⓘ

    Intel HD Graphics 4000

        Color LCD 1280 x 800

System Software: ⓘ

    OS X El Capitan 10.11.6 (15G1004) - Time since boot: less than an hour

Disk Information: ⓘ

    APPLE HDD HTS545050A7E362 disk0 : (500.11 GB) (Rotational)

        EFI (disk0s1) <not mounted> : 210 MB

        Recovery HD (disk0s3) <not mounted>  [Recovery]: 650 MB

        Macintosh HD (disk1) / : 498.88 GB (400.52 GB free)

            Encrypted AES-XTS Unlocked

            Core Storage: disk0s2 499.25 GB Online

    HL-DT-ST DVDRW  GS41N   ()

USB Information: ⓘ

    Apple Inc. FaceTime HD Camera (Built-in)

    Apple Inc. Apple Internal Keyboard / Trackpad

    Apple Computer, Inc. IR Receiver

    Apple Inc. BRCM20702 Hub

        Apple Inc. Bluetooth USB Host Controller

    Logitech USB Receiver

Thunderbolt Information: ⓘ

    Apple Inc. thunderbolt_bus

Gatekeeper: ⓘ

    Mac App Store and identified developers

Kernel Extensions: ⓘ

        /Applications/Parallels Access.app

    [loaded]    com.parallels.virtualhid (1.0.3 - SDK 10.9 - 2016-07-19) [Support]

    [loaded]    com.parallels.virtualsound (1.0.36 - SDK 10.6 - 2016-07-19) [Support]

        /Applications/Parallels Desktop.app

    [not loaded]    com.parallels.kext.hypervisor (11.2.0 32581 - SDK 10.9 - 2016-07-10) [Support]

    [not loaded]    com.parallels.kext.netbridge (11.2.0 32581 - SDK 10.9 - 2016-07-10) [Support]

    [not loaded]    com.parallels.kext.usbconnect (11.2.0 32581 - SDK 10.9 - 2016-07-10) [Support]

    [not loaded]    com.parallels.kext.vnic (11.2.0 32581 - SDK 10.9 - 2016-07-10) [Support]

System Launch Agents: ⓘ

    [failed]    com.apple.gamed.plist (2015-08-23)

    [not loaded]    7 Apple tasks

    [loaded]    154 Apple tasks

    [running]    76 Apple tasks

System Launch Daemons: ⓘ

    [not loaded]    44 Apple tasks

    [loaded]    162 Apple tasks

    [running]    85 Apple tasks

Launch Agents: ⓘ

    [not loaded]    com.adobe.AAM.Updater-1.0.plist (2013-08-04) [Support]

    [running]    com.parallels.mobile.prl_deskctl_agent.launchagent.plist (2016-07-19) [Support]

    [failed]    com.realvnc.vncserver.peruser.plist (2013-10-03) [Support]

    [not loaded]    com.realvnc.vncserver.prelogin.plist (2013-10-03) [Support]

    [not loaded]    com.teamviewer.teamviewer.plist (2015-03-02) [Support]

    [not loaded]    com.teamviewer.teamviewer_desktop.plist (2015-03-02) [Support]

    [running]    com.trusteer.rapport.rapportd.plist (2016-07-18) [Support]

Launch Daemons: ⓘ

    [loaded]    com.adobe.SwitchBoard.plist (2013-05-15) [Support]

    [loaded]    com.adobe.fpsaud.plist (2016-06-13) [Support]

    [loaded]    com.microsoft.office.licensing.helper.plist (2010-08-25) [Support]

    [running]    com.parallels.mobile.dispatcher.launchdaemon.plist (2016-07-19) [Support]

    [loaded]    com.parallels.mobile.kextloader.launchdaemon.plist (2016-07-19)

    [loaded]    com.realvnc.vncserver.plist (2013-10-03) [Support]

    [loaded]    com.teamviewer.Helper.plist (2015-03-02) [Support]

    [not loaded]    com.teamviewer.teamviewer_service.plist (2015-03-02) [Support]

    [running]    com.trusteer.rooks.rooksd.plist (2016-07-18) [Support]

User Launch Agents: ⓘ

    [loaded]    com.SoftwareSecure.goloader.plist (2015-11-23) [Support]

    [loaded]    com.adobe.AAM.Updater-1.0.plist (2013-05-16) [Support]

    [loaded]    com.google.keystone.agent.plist (2016-07-12) [Support]

    [running]    com.parallels.mobile.startgui.launchagent.plist (2016-09-18) [Support]

User Login Items: ⓘ

    iTunesHelper    Application  (/Applications/iTunes.app/Contents/MacOS/iTunesHelper.app)

    TomTomHOMERunner    Application Hidden (~/Library/Application Support/TomTom HOME/TomTomHOMERunner.app)

    Google Chrome    Application Hidden (/Applications/Google Chrome.app)

Internet Plug-ins: ⓘ

    SharePointBrowserPlugin: 14.0.0 (2012-12-31) [Support]

    FlashPlayer-10.6: 22.0.0.192 - SDK 10.9 (2016-06-19) [Support]

    QuickTime Plugin: 7.7.3 (2016-08-03)

    AdobeExManDetect: AdobeExManDetect 1.1.0.0 - SDK 10.7 (2013-08-04) [Support]

    Flash Player: 22.0.0.192 - SDK 10.9 (2016-06-19) Outdated! Update

    Default Browser: 601 - SDK 10.11 (2016-08-03)

Safari Extensions: ⓘ

    Open in Internet Explorer - Parallels - http://www.parallels.com (2014-06-07)

3rd Party Preference Panes: ⓘ

    Flash Player (2016-06-13) [Support]

    Trusteer Endpoint Protection (2016-08-04) [Support]

Time Machine: ⓘ

    Time Machine not configured!

Top Processes by CPU: ⓘ

         6%    WindowServer

         5%    mdworker(22)

         3%    kernel_task

         1%    fontd

         0%    cloudpaird

Top Processes by Memory: ⓘ

    997 MB    kernel_task

    508 MB    com.apple.WebKit.WebContent(2)

    393 MB    mdworker(22)

    180 MB    Safari

    147 MB    mds_stores

Virtual Memory Information: ⓘ

    11.00 GB    Free RAM

    5.01 GB    Used RAM (2.48 GB Cached)

    0 B    Swap Used

Diagnostics Information: ⓘ

    Sep 18, 2016, 09:50:31 AM    ~/Library/Logs/DiagnosticReports/gamed_2016-09-18-095031_[redacted].crash

        /System/Library/PrivateFrameworks/GameCenterFoundation.framework/Versions/A/gam ed

    Sep 18, 2016, 09:42:52 AM    Self test - passed

    Sep 17, 2016, 10:51:06 PM    /Library/Logs/DiagnosticReports/QuickTime Player_2016-09-17-225106_[redacted].hang

        /Applications/QuickTime Player.app/Contents/MacOS/QuickTime Player

    Sep 17, 2016, 02:39:14 PM    /Library/Logs/DiagnosticReports/softwareupdated_2016-09-17-143914_[redacted].cr ash

        /System/Library/CoreServices/Software Update.app/Contents/Resources/softwareupdated

    Sep 17, 2016, 09:02:02 AM    ~/Library/Logs/DiagnosticReports/Mail_2016-09-17-090202_[redacted].crash

        com.apple.mail - /Applications/Mail.app/Contents/MacOS/Mail

    Sep 17, 2016, 09:00:28 AM    ~/Library/Logs/DiagnosticReports/Mail_2016-09-17-090028_[redacted].crash

    Sep 17, 2016, 08:44:32 AM    /Library/Logs/DiagnosticReports/Google Chrome_2016-09-17-084432_[redacted].hang

        /Applications/Google Chrome.app/Contents/MacOS/Google Chrome

    Sep 17, 2016, 08:41:41 AM    /Library/Logs/DiagnosticReports/softwareupdate_download_service_2016-09-17-0841 41_[redacted].crash

        /System/Library/CoreServices/Software Update.app/Contents/Resources/softwareupdate_download_service

    Sep 15, 2016, 10:50:56 AM    /Library/Logs/DiagnosticReports/softwareupdate_download_service_2016-09-15-1050 56_[redacted].crash

    Sep 15, 2016, 10:46:46 AM    /Library/Logs/DiagnosticReports/apsd_2016-09-15-104646_[redacted].crash

        /System/Library/PrivateFrameworks/ApplePushService.framework/apsd