Also, as this server is pretty old, I'd expect the disks to die of age, so it is quite likely that the other old disks in the array will go down soon. Another thing you should do, is replace the battery on the array controller, it will also be quite old and spent by now, and if that is the case it could cause errors in the array.
The difference in the HD's shouldn't be much of a problem, you will just only be stuck at the performance of the worst disk in the array, The important thing is that your disk replacements need to have at least the same capacity or more compared to the old disks.