Malwarebytes Premium offers real-time protection, which is always on in the background and actively scanning files and executables, preventing infections from happening in the first place. Even if you scan every single day, there will always be a period of time between scans where your data and system are vulnerable.
Malwarebytes Free only does manual scans, meaning it can only catch malware after you've been infected. When it comes to malware, it's safer and more effective to catch potential infections before they take root than it is to diagnose and clean an infected system. Investing in robust locks and alarms is cheaper than replacing everything when your home is burglarized. Taking care of your car is cheaper than getting it repaired when it breaks down. Exercise and good hygiene are cheaper than visits to the ER.