I'm running 3.8 off the harddisk. With prolonged disk activity (such as md5sum of a huge file, creating a big file with dd such as making a persistent homedir, doing a diff on two huge files, etc), the system response time gets very slow. The mouse pointer is so erratic as to almost be unusable, and system response at the command line is significantly reduced. Running top from a tty, it looks as if X-related processes are suddenly using a fair amount of CPU, in particular kmix (of all things) which jumps up to 10% or more. Sometimes when I have done this a kernel process called [pdflush] eats huge gobs of CPU at 40% or more. Once the disk process ends, pdflush, kmix, and the other X processes drop back to normal.
None of this happened with 3.7
I realize this isn't likely to be a knoppix problem but I was hoping someone might be able to shed some light or give me pointers where else to ask about this.

Seagate ST6000NM0115 6TB 256MB 7200RPM 3.5" SATA 6.0Gb/s Enterprise Hard Drive
$159.99
HUS726060ALA640 HGST Ultrastar 6TB SATA 6Gbps 7.2K 3.5" Hard Drive OF21860
$129.99
New Western Digital WD40EFPX 68C6CN0 4TB 3.5" SATA III Internal NAS Red Plus HDD
$137.59
Western Digital WD Blue WD10EZEX 1 TB 3.5" SATA III Desktop Hard Drive
$23.99
Seagate ST500DM009 BarraCuda 500 GB 3.5" SATA III Desktop Hard Drive
$14.99
HGST HUS724040ALA640 4TB 7200 RPM SATA 3.5" Internal Desktop Drive 100% Health
$78.00
Hitachi / HGST Travelstar HTS541010B7E610 1TB 2.5" SATA III HDD
$29.99
HITACHI ULTRASTAR 2TB 7.2K 6G 3.5INCH SATA HDD HUS724020ALA640 | TESTED WIPED
$34.95
Hitachi HUS726060ALA640 6TB 7.2K SATA 3.5 6G HDD Hard Disc Drive
$109.99
Toshiba DT01ACA100 1 TB 3.5" SATA III 3.5 in Desktop Hard Drive
$24.99