i used the noclick too, and have same problem on some drives.
but, IIRC, someone (readme.txt?) said that if the drive doesnt go completely silent after noclick, then do *not* use that utility. the problem is that heads will get misaligned after 'hitting the wall' for long time. you have been warned
So don't hit your floppy drives against the wall for even a short time, and they won't get misaligned.
I've been using noclick for 4 years on my A1200 (where you can still hear a faint clunk) and have never had a problem.