Solved 100% Disk Usage, computer nigh unsuable, BSOD for CHKDSK

You're most welcome :)
 

My Computer

System One

  • OS
    Windows 10 Pro
    Computer type
    PC/Desktop
    System Manufacturer/Model
    Custom build
    CPU
    i5-6500 @3.20GHz
    Motherboard
    Gigabyte B150-HD3P-CF
    Memory
    16GB DDR4 2133 Crucial Ballistix Sport LT
    Graphics Card(s)
    MSI GeForce GTX 1060 GAMING X 6G
    Sound Card
    Built-in
    Monitor(s) Displays
    Liyama ProLite XB2483HSU-B2
    Screen Resolution
    1920 x 1080
    Hard Drives
    Crucial MX200 500GB & Toshiba DT01ACA300 3TB
    PSU
    Corsair RM550x
    Case
    Fractal Design Define S
    Cooling
    Cooler Master TX3 i
    Keyboard
    Func KB-460 (MX Red)
    Mouse
    Corsair Gaming M65 RGB
    Browser
    Google Chrome
    Antivirus
    Bitdefender Total Security 2017 + MBAM Pro + MBAE Pro
    Other Info
    Creative Sound Blaster Tactic3D Rage V2 headset
What if I told you that the problem appears to have resurfaced? His computer recently just froze at the login screen for Windows, and it almost seemed like we couldn't get past it. Using patience, we eventually logged onto his computer. However, everything is almost just as slow as before. Task manager also shows his disk usage at 100% again, even though it is only using like .2mb/s. He can hardly open any programs, and his explorer has crashed a couple times along with his mouse and keyboard.

Since we already restored Windows and that only proved to be a temporary solution (even with the full reinstall and the upgrade to Windows 10), what do you think the problem is / what could we do to fix it?
 

My Computer

System One

  • OS
    Windows 8.1 64bit + Windows 10 64bit
    Computer type
    PC/Desktop
    System Manufacturer/Model
    Custom Built
    CPU
    Intel Core i7-5930K 3.5GHz 6-Core Processor
    Motherboard
    Asus X99-DELUXE ATX LGA2011-3 Motherboard
    Memory
    Crucial Ballistix Sport 16GB (2 x 8GB) DDR4-2400 Memory
    Graphics Card(s)
    EVGA GTX970 x 2 (2way SLI)
    Sound Card
    Motherboard included
    Monitor(s) Displays
    Sceptre TV (HDMI)
    Screen Resolution
    1360x760
    Hard Drives
    Samsung 850 EVO-Series 250GB 2.5" Solid State Drive
    Samsung Spinpoint F1 DT 1TB 3.5" 7200RPM Internal Hard Drive
    PSU
    Rosewill 1000W 80+ Bronze Certified Semi-Modular ATX Power Supply
    Case
    ENERMAX FULMO GT ECA1092AG-BL Black SEEC 0.8mm ATX Full Tower Computer Case
    Cooling
    Arctic Cooling Freezer i11 74.0 CFM CPU Cooler
    Keyboard
    Steelseries APEX Wired Gaming Keyboard
    Mouse
    Razer Naga 2014 Wired Gaming Mouse
    Internet Speed
    4MB/s+
    Browser
    Google Chrome
    Antivirus
    Windows Defender + Malwarebytes
    Other Info
    Custom Built Gaming Rig
Then it sounds like a failing hard drive.
Diagnostics for the hard drive can be found here
 

My Computer

System One

  • OS
    Windows 10 Pro
    Computer type
    PC/Desktop
    System Manufacturer/Model
    Custom build
    CPU
    i5-6500 @3.20GHz
    Motherboard
    Gigabyte B150-HD3P-CF
    Memory
    16GB DDR4 2133 Crucial Ballistix Sport LT
    Graphics Card(s)
    MSI GeForce GTX 1060 GAMING X 6G
    Sound Card
    Built-in
    Monitor(s) Displays
    Liyama ProLite XB2483HSU-B2
    Screen Resolution
    1920 x 1080
    Hard Drives
    Crucial MX200 500GB & Toshiba DT01ACA300 3TB
    PSU
    Corsair RM550x
    Case
    Fractal Design Define S
    Cooling
    Cooler Master TX3 i
    Keyboard
    Func KB-460 (MX Red)
    Mouse
    Corsair Gaming M65 RGB
    Browser
    Google Chrome
    Antivirus
    Bitdefender Total Security 2017 + MBAM Pro + MBAE Pro
    Other Info
    Creative Sound Blaster Tactic3D Rage V2 headset
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