>I need some advice about protecting tables and index files from getting corrupted.

There are entire conferences dedicated to this topic. Frequent backups. High-quality media and hardware. Mirroring your server's drives. Using a UPS on your machines. On the server(s), using a smart UPS that can coordinate a graceful system shutdown. Good security to protect the files from hackers and other apps. Frequent use of the FLUSH command can also be helpful.