Just to make sure everyone is on the same page these are the credentials I'm talking about...
$user = 'user';// not actual user, not root either
$pass = 'pass';// not actual password
$server = 'localhost';
$database = mysqli_connect($server,$user,$pass,true|false);
So I'm talking about the passwords used to connect to the database, not the passwords in the database (which for clarification I have hashed with salt and pepper).
I have not read anything that I think remotely suggests you can have 100% foolproof security since obviously the server needs to connect to the database and get the content for visitors 24/7; if I am mistaken I would love to hear how this would be possible.
So let's presume a hacker has root access (or if that does not imply access to the PHP code let's just say then have access to all the PHP source code) and they (in this circumstance) desire to access/modify/etc databases. If we can not prevent them should they have access to the PHP source then we want to slow them down as much as possible. I can keep each site/database connection password in separate files (can as in I'm a few weeks from finishing multi-domain support) for each site and not inside of public_html (obviously). I use serialize and unserialize to store certain variables to ensure certain level of fault tolerance for when the database becomes unavailable on shared hosting (preventing site A from looking and acting like site B and vice-versa) as the database can sometimes become unavailable numerous times a day (my database error logs are written to when the SQL service becomes available again and catches these "away" errors). One thought that has crossed my mind is determining a way to store the passwords in one hash and un-hashing them to be used to connect to the database by PHP though I'd like some opinions about this as well please.
If someone has a suggestion from the database perspective (e.g. having the ability to restrict users to SELECT, INSERT, DELETE, UPDATE, etc and not allowing DROP and TRUNCATE as examples) my primary concern is making sure I am SQL neutral as I plan to eventually migrate from MySQL to PostgreSQL (this may or may not be relevant though if it is better to mention it). I currently use phpMyAdmin and cPanel and phpMyAdmin shows the connected user is not the same as the site's database user names so in that regard I can still use certain commands (DROP and TRUNCATE as examples again) with that user and restrict the SITE user permissions unless I am mistaken for some reason?
Is there a way to configure the context of where the connection credentials are accepted? For clarification a hacker with access to the source code would not be accessing the site the same way legitimate users would.
Another idea that crossed my mind is system based encryption, is there a near-universal (as in on every or almost every LAMP web host setup) web-hosting technique where the system can read/write the file through Apache that would introduce a new layer that a hacker would have to determine a way to circumvent?
I am using different passwords for each user of course.
I currently am on shared hosting though hopefully my setup will scale upwards to dedicated hosting eventually.
So what are the thoughts on my security concepts and what other concepts could I try out to make my database connection credentials more secure?
Clarification: I am looking for ideas that I can pursue. If there is disagreement with any of the suggestions please ask for clarification and explain your concern in place of debating a given approach as I may or may not have even considered let alone begun to pursue a given concept. Thanks!