An alternating green/amber flashing means that the drive is in a predictive failure state. What OS is the system running? If you hotswap a predictive failure drive it can possibly cause other array issues because the drive was online and participating in the array with errors on the drive. The proper replacement method is to use our Openmanage Server Administrator software to run a consistency check on the array and then offline the drive. Once this has been done you then can swap the drive. It sounds like in your case the new drive had bad data copied back to it and made it a predictive failure as well. What we will want to do is run our hard drive diagnostics and test the drives in the system.   [URL]   Install this and run the GUI version from the start menu. On the left pane select the PERC 5 and then on the bottom right pane select quick test and then run tests.
I have a Dell PowerEdge 2900 Server. The primary drive array has three drives and it is RAID 5. The system came this way, and it has been humming along for quite a long time. Recently, one of the drives became degraded and the light on the drive flashes the green and amber light. The amber light, I assumed, means that there is a problem with the drive and it needs to be replaced. So, I found a replacement drive on Amazon.com and installed it (the drive is hot swappable, but I cold booted to be safe). I installed the drive, but the green and amber light is still flashing. I did not know that I was not supposed to replace the drive this way so I am now trying to figure out what to do next. I was hoping to reassign the foreign disk so that I could use it, but my server still shows the drive as failed even though the new replacement drive is in the slot, now. I am running PERC 5/I Integrated Bios Configuration Utility 1.04-019AI booted the server and pressed CTRL-R. I highlighted the controller, and pressed the F2 button, which is Operations. When the Operations window opens, there are three menu items:Create New VDReset ConfigForeign ConfigThe only thing I am allowed to do in this menu is to Reset the Config. I cannot move my cursor up or down to either of the other two menu choices.When scroll down to the virtual disk and view it, it still shows the first two drives, and one missing.When I press CTRL-N to view the next screen, I see one drive listed as failed. How can I rebuild my RAID with this new drive? If I cannot do that, what is the best way to delete the RAID and start over? If I delete the RAID and start over (and if my replacement drive is indeed good), how can I make sure my server does not see it as failed so that I can begin using it?   
Dell PowerEdge 2900 RAID and failed Drive