I just had this problem re-appaer after I fixed it, see my commentsin
bug "https://bugs.launchpad.net/ubuntu/+source/linux/+bug/334914";. Still
running with same hardware. Now I'm on 9.10 with kernel:

a...@alex-desktop:~$ uname -r
2.6.31-17-generic

After I installed 9.10 with its default kernel on release day, I
remember to have made backups to my 1TB USB2.0 drive that went at
expected speeds. Today I wanted to backup again and it started off fast
at ~35MB/s in nautilus but went to ~2MB/s after ~400MB was copied.
"dstat showed it was writing at ~1.5MB/s.

The thing to note here is I connected it to the front-panel of my computer case 
which is connected to the motherboard. The case is an Antec 900, 
"http://www.antec.com/Believe_it/product.php?id=MTEyOQ==";. Bought it 2 years 
ago so it may have undergone some revisions.
Next I connected the USB drive to the backpanel (USB port directly on 
motherboard) and now it had normal speeds again, dstat ~30MB/s-40MB/s.
The front panel has given me some troubles before since it seems that the slots 
on it do not always make a good electrical connection, resulting in the device 
not being recognised or disappearing. But my USB drive stayed reliably 
connected, just at slow speeds.
So now I'm wondering if there may be a technical difference in the front- and 
backpanel connections that limit the speed.

-- 
file transfers on USB flash key (pendrive) are slowing down with time
https://bugs.launchpad.net/bugs/197762
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