You really need to start over, and properly install just one version of Amiga DOS. Ideally, as a minimum you need 2.04 ROM with AmigaDOS 2.1. In a pinch, you could use 2.05 ROM, without a problem.
The problems your experencing are all based on an improper install, which will cause you future glitches. Format the partition, and re-install a proper set of disks.
