Hi All. Joining the discussion a bit late but I thought I'd tell my experience with the clicking issue.
I've had a Mac Mini for over 4 years now. The first 3 years everything was working great (despite the slowdown after filling the drive and running multiple apps) There was a clinking noise, but I took it for granted. One day, things got really slow and apps like Photoshop couldn't remember the last thing I did. Then, I got the beachball of death. I tried to solve problems myself but ended up sending it off for repair. The repair guys managed to save all my data but the HDD was done for so they installed a new 1TB Hitachi HDD and sent it back. Thing were back up and running and I did a big back up of everything I had so far. Eventually I started to notice the clicking but again, I took it for granted. I didn't even mention it to the repair guys as I didn't think it was a problem. 8 Months down the line I was happily working away with no apparent issue of slowdown or apps not running as they are supposed to. I tried to upload a file to the web and BAM! Beach ball of death! I'm a panic I rebooted and tried to back up the last month of files to an external HD, I didn't get far before the Mac was unusable. I could even get the thing to boot to the desk top.
I phoned the same repair guys and told them what happed only this time I mentioned that I could hear load clicking noises every so often. They told me that it was a sign that the HDD is failing and that I should send it in for data recovery. They were confused as the HD was only 8 months old.
I sent it in only this time they couldn't save all my data, they rescued 120gb of 380gb. I was gutted. They have intalled a new HDD on warranty and I have received to Mac back only yesterday.
After booting up the Mac for the first time I was listening out for any unusual sounds. Low and behold, the clicking was back. Its not as loud as the last one but I'm worried it'll get worse and in 8 months down the line I will be sending it back again, maybe sooner.
After reading through this topic I noticed most replies say that its normal for the clicking but others say get a replacement. I'm unsure what to do now. I work from home and can't afford to keep sending my mac away for repairs (the time and the money).
Please be warned if you think its OK that its clicking. It might be fine at first, but it'll get you when you least expect it. My feeling is that everytime theres a click, the HDD is dying.
I'm expecting a call from repair to discuses the clicking on my new HDD. I'll be back to let everyone know what they say. In the mean time, back up Back Up BACK UP.